[ { "id": "Q6TQE1-1.743.743", "start_pos": 743, "end_pos": 743, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SDDMYADLASPVSSASSRSP", "down_seq": "PAQTKKERGKSKKEDGVREE", "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": "Thr743", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "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": "Q6TQE1-1.104.104", "start_pos": 104, "end_pos": 104, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LSRGPAGSPCEEGDDAEEDG", "down_seq": "SDLRDEASSVTRELDEHELD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Thr104" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q6TQE1-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q6TQE1-1.105.105", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q6TQE1-1.113.113", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "Q6TQE1-1.105.105", "start_pos": 105, "end_pos": 105, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRGPAGSPCEEGDDAEEDGT", "down_seq": "DLRDEASSVTRELDEHELDY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser105" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q6TQE1-1.91.91", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q6TQE1-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q6TQE1-1.113.113", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "Q6TQE1-1.113.113", "start_pos": 113, "end_pos": 113, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CEEGDDAEEDGTSDLRDEAS", "down_seq": "VTRELDEHELDYDEEVPEEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser113" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q6TQE1-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q6TQE1-1.105.105", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "Q6TQE1-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEEEEKGEGAPGEEGKPDVQ", "down_seq": "VGEKEPTEAAKEKKKEDDDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser168" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "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": 0 } ], "sort_fields": [] } ] }, { "id": "Q6TQE1-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HSPDEEQPALSDDDILRESG", "down_seq": "EQDLDGAGERASDLEEEENA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser32" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "Q6TQE1-1.44.44", "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": 0 } ], "sort_fields": [] } ] }, { "id": "Q6TQE1-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDILRESGSEQDLDGAGERA", "down_seq": "DLEEEENATRVQSQEEIHSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "site_lbl": "Ser44" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q6TQE1-1.32.32", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q6TQE1-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q6TQE1-1.63.63", "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": "Q6TQE1-1.482.482", "start_pos": 482, "end_pos": 482, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HRDRDRDKDRDKDKEKPKPR", "down_seq": "PQPPSRQAEPPKKETASVGP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser482" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "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": 0 } ], "sort_fields": [] } ] }, { "id": "Q6TQE1-1.527.527", "start_pos": 527, "end_pos": 527, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ADEWKDPWRRSKSPKKKLGV", "down_seq": "VSPSRARRRRKTSASSASAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser527" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q6TQE1-1.529.529", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q6TQE1-1.531.531", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "Q6TQE1-1.529.529", "start_pos": 529, "end_pos": 529, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EWKDPWRRSKSPKKKLGVSV", "down_seq": "PSRARRRRKTSASSASASNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "site_lbl": "Ser529" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q6TQE1-1.527.527", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q6TQE1-1.531.531", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q6TQE1-1.531.531", "start_pos": 531, "end_pos": 531, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KDPWRRSKSPKKKLGVSVSP", "down_seq": "RARRRRKTSASSASASNSSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser531" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q6TQE1-1.527.527", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q6TQE1-1.529.529", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q6TQE1-1.57.57", "start_pos": 57, "end_pos": 57, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DGAGERASDLEEEENATRVQ", "down_seq": "QEEIHSDEEDQASEPKSQDQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "site_lbl": "Ser57" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q6TQE1-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q6TQE1-1.63.63", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q6TQE1-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q6TQE1-1.74.74", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q6TQE1-1.63.63", "start_pos": 63, "end_pos": 63, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASDLEEEENATRVQSQEEIH", "down_seq": "DEEDQASEPKSQDQDSEAHE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "site_lbl": "Ser63" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q6TQE1-1.44.44", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q6TQE1-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q6TQE1-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q6TQE1-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q6TQE1-1.79.79", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q6TQE1-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MDVAE", "down_seq": "PELEPHSPDEEQPALSDDDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser6" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "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": 0 } ], "sort_fields": [] } ] }, { "id": "Q6TQE1-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ENATRVQSQEEIHSDEEDQA", "down_seq": "EPKSQDQDSEAHELSRGPAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q6TQE1-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q6TQE1-1.63.63", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q6TQE1-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q6TQE1-1.79.79", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q6TQE1-1.74.74", "start_pos": 74, "end_pos": 74, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RVQSQEEIHSDEEDQASEPK", "down_seq": "QDQDSEAHELSRGPAGSPCE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "site_lbl": "Ser74" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q6TQE1-1.57.57", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q6TQE1-1.63.63", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q6TQE1-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q6TQE1-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q6TQE1-1.91.91", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q6TQE1-1.79.79", "start_pos": 79, "end_pos": 79, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EEIHSDEEDQASEPKSQDQD", "down_seq": "EAHELSRGPAGSPCEEGDDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "site_lbl": "Ser79" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q6TQE1-1.63.63", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q6TQE1-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q6TQE1-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q6TQE1-1.91.91", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q6TQE1-1.837.837", "start_pos": 837, "end_pos": 837, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NKAAEKGSRKRYEPSDKDRQ", "down_seq": "PPAKKANLSPDRGSRDRKSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser837" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "Q6TQE1-1.846.846", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "Q6TQE1-1.846.846", "start_pos": 846, "end_pos": 846, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KRYEPSDKDRQSPPAKKANL", "down_seq": "PDRGSRDRKSGGRMGSPKPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "site_lbl": "Ser846" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q6TQE1-1.837.837", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q6TQE1-1.862.862", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q6TQE1-1.862.862", "start_pos": 862, "end_pos": 862, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KANLSPDRGSRDRKSGGRMG", "down_seq": "PKPERQRGQNAKAPAAPADR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser862" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q6TQE1-1.846.846", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "Q6TQE1-1.887.887", "start_pos": 887, "end_pos": 887, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RQRGQNAKAPAAPADRKRPL", "down_seq": "PQSKSSSKVTSVPGKATDTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "site_lbl": "Ser887" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q6TQE1-1.890.890", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q6TQE1-1.890.890", "start_pos": 890, "end_pos": 890, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GQNAKAPAAPADRKRPLSPQ", "down_seq": "KSSSKVTSVPGKATDTATAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "site_lbl": "Ser890" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q6TQE1-1.887.887", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q6TQE1-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "Q6TQE1-1", "length": 947, "uniprot_id": "ZCH18_RAT", "protein_name": "Zinc finger CCCH domain-containing protein 18", "refseq_ac": "NP_958819", "refseq_name": "zinc finger CCCH domain-containing protein 18 isoform 2", "gene_name": "Zc3h18", "gene_names_uniprotkb": "Zc3h18; Nhn1", "gene_names_refseq": "Nhn1; Zc3h18", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EPKSQDQDSEAHELSRGPAG", "down_seq": "PCEEGDDAEEDGTSDLRDEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q6TQE1", "url": "https://www.uniprot.org/uniprotkb/Q6TQE1" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q6TQE1", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q6TQE1" } ], "site_lbl": "Ser91" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "606", "end_pos": "606" }, { "start_pos": "743", "end_pos": "743" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "44", "end_pos": "44" }, { "start_pos": "482", "end_pos": "482" }, { "start_pos": "527", "end_pos": "527" }, { "start_pos": "529", "end_pos": "529" }, { "start_pos": "531", "end_pos": "531" }, { "start_pos": "57", "end_pos": "57" }, { "start_pos": "63", "end_pos": "63" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "79", "end_pos": "79" }, { "start_pos": "837", "end_pos": "837" }, { "start_pos": "846", "end_pos": "846" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "887", "end_pos": "887" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "91", "end_pos": "91" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q6TQE1-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q6TQE1-1.79.79", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q6TQE1-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q6TQE1-1.105.105", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q5XI00-1.104.104", "start_pos": 104, "end_pos": 104, "uniprot_canonical_ac": "Q5XI00-1", "length": 566, "uniprot_id": "TCP11_RAT", "protein_name": "T-complex protein 11 homolog", "refseq_ac": "NP_001007696", "refseq_name": "T-complex protein 11 homolog", "gene_name": "Tcp11", "gene_names_uniprotkb": "Tcp11", "gene_names_refseq": "Tcp11", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q5XI00", "url": "https://www.uniprot.org/uniprotkb/Q5XI00" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q5XI00", "url": "https://www.uniprot.org/uniprotkb/Q5XI00" }, { "database": "iPTMnet", "id": "Q5XI00", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5XI00" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q5XI00", "url": "https://www.uniprot.org/uniprotkb/Q5XI00", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q5XI00", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5XI00", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PQPSARAKLPSVTRGAPLPP", "down_seq": "PGKGHFGATPISHRLGLTER", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q5XI00", "url": "https://www.uniprot.org/uniprotkb/Q5XI00" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q5XI00", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5XI00" } ], "site_lbl": "Ser104" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "461", "end_pos": "461" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q5XI00-1.461.461", "start_pos": 461, "end_pos": 461, "uniprot_canonical_ac": "Q5XI00-1", "length": 566, "uniprot_id": "TCP11_RAT", "protein_name": "T-complex protein 11 homolog", "refseq_ac": "NP_001007696", "refseq_name": "T-complex protein 11 homolog", "gene_name": "Tcp11", "gene_names_uniprotkb": "Tcp11", "gene_names_refseq": "Tcp11", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q5XI00", "url": "https://www.uniprot.org/uniprotkb/Q5XI00" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q5XI00", "url": "https://www.uniprot.org/uniprotkb/Q5XI00" }, { "database": "iPTMnet", "id": "Q5XI00", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5XI00" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q5XI00", "url": "https://www.uniprot.org/uniprotkb/Q5XI00", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q5XI00", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5XI00", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QTVSDQVTEEIHQSLKNMGL", "down_seq": "PLSSENTDSLIGQLQNIAKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q5XI00", "url": "https://www.uniprot.org/uniprotkb/Q5XI00" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q5XI00", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5XI00" } ], "site_lbl": "Ser461" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "461", "end_pos": "461" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q498E2-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "Q498E2-1", "length": 182, "uniprot_id": "TDRP_RAT", "protein_name": "Testis development-related protein", "refseq_ac": "NP_001094261", "refseq_name": "testis development-related protein", "gene_name": "Tdrp", "gene_names_uniprotkb": "Tdrp", "gene_names_refseq": "Tdrp", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q498E2", "url": "https://www.uniprot.org/uniprotkb/Q498E2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative phosphoproteomics of vasopressin-sensitive renal cells: regulation of aquaporin-2 phosphorylation at two sites.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2006", "authors": "Hoffert JD, Pisitkun T, Wang G, Shen RF, Knepper MA", "evidence": [ { "database": "UniProtKB", "id": "Q498E2", "url": "https://www.uniprot.org/uniprotkb/Q498E2" }, { "database": "iPTMnet", "id": "Q498E2", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q498E2" } ], "reference": [ { "type": "PubMed", "id": "16641100", "url": "https://glygen.org/publication/PubMed/16641100" } ] } ], "crossref": [ { "id": "Q498E2", "url": "https://www.uniprot.org/uniprotkb/Q498E2", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "16641100", "url": "https://glygen.org/publication/PubMed/16641100", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q498E2", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q498E2", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MWKLSR", "down_seq": "RVLLDEPPEEEDVLRGASPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q498E2", "url": "https://www.uniprot.org/uniprotkb/Q498E2" }, { "database": "PubMed", "id": "16641100", "url": "https://glygen.org/publication/PubMed/16641100" }, { "database": "iPTMnet", "id": "Q498E2", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q498E2" } ], "site_lbl": "Ser7" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "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": "Q5RJR2-1.143.143", "start_pos": 143, "end_pos": 143, "uniprot_canonical_ac": "Q5RJR2-1", "length": 350, "uniprot_id": "TWF1_RAT", "protein_name": "Twinfilin-1", "refseq_ac": "NP_001008521", "refseq_name": "twinfilin-1", "gene_name": "Twf1", "gene_names_uniprotkb": "Twf1; Ptk9", "gene_names_refseq": "Ptk9; Twf1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2" }, { "database": "iPTMnet", "id": "Q5RJR2", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5RJR2" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q5RJR2", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5RJR2", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GTVKEDVSLHGYRKYLLSQS", "down_seq": "PAPLTAAEEELRQIKISEVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q5RJR2", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5RJR2" } ], "site_lbl": "Ser143" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "349", "end_pos": "349" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q5RJR2-1.277.277", "start_pos": 277, "end_pos": 277, "uniprot_canonical_ac": "Q5RJR2-1", "length": 350, "uniprot_id": "TWF1_RAT", "protein_name": "Twinfilin-1", "refseq_ac": "NP_001008521", "refseq_name": "twinfilin-1", "gene_name": "Twf1", "gene_names_uniprotkb": "Twf1; Ptk9", "gene_names_refseq": "Ptk9; Twf1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Quantitative maps of protein phosphorylation sites across 14 different rat organs and tissues.", "journal": "Nature communications", "date": "2012", "authors": "Lundby A, Secher A, Lage K, Nordsborg NB, Dmytriyev A, Lundby C, Olsen JV", "evidence": [ { "database": "UniProtKB", "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2" }, { "database": "iPTMnet", "id": "Q5RJR2", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5RJR2" } ], "reference": [ { "type": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" } ] } ], "crossref": [ { "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q5RJR2", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5RJR2", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YSMPGYTCSIRERMLYSSCK", "down_seq": "PLLDIVERQLQMDVIRKIEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2" }, { "database": "PubMed", "id": "22673903", "url": "https://glygen.org/publication/PubMed/22673903" }, { "database": "iPTMnet", "id": "Q5RJR2", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q5RJR2" } ], "site_lbl": "Ser277" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "349", "end_pos": "349" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q5RJR2-1.309.309", "start_pos": 309, "end_pos": 309, "uniprot_canonical_ac": "Q5RJR2-1", "length": 350, "uniprot_id": "TWF1_RAT", "protein_name": "Twinfilin-1", "refseq_ac": "NP_001008521", "refseq_name": "twinfilin-1", "gene_name": "Twf1", "gene_names_uniprotkb": "Twf1; Ptk9", "gene_names_refseq": "Ptk9; Twf1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "MDVIRKIEIDNGDELTADFL", "down_seq": "DEVHPKQHAHKQSFAKPKGP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "Phosphotyrosine", "evidence": [ { "database": "UniProtKB", "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2" } ], "site_lbl": "Tyr309" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "349", "end_pos": "349" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q5RJR2-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "Q5RJR2-1", "length": 350, "uniprot_id": "TWF1_RAT", "protein_name": "Twinfilin-1", "refseq_ac": "NP_001008521", "refseq_name": "twinfilin-1", "gene_name": "Twf1", "gene_names_uniprotkb": "Twf1; Ptk9", "gene_names_refseq": "Ptk9; Twf1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PAGKRGIRRLIRGPAEAEAT", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "Q5RJR2", "url": "https://www.uniprot.org/uniprotkb/Q5RJR2" } ], "site_lbl": "Thr349" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "277", "end_pos": "277" }, { "start_pos": "309", "end_pos": "309" }, { "start_pos": "349", "end_pos": "349" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "A0A0G2JU98-1.92.92", "start_pos": 92, "end_pos": 92, "uniprot_canonical_ac": "A0A0G2JU98-1", "length": 439, "uniprot_id": "A0A0G2JU98_RAT", "protein_name": "SH3 and cysteine-rich domain-containing protein 2", "refseq_ac": "", "refseq_name": "", "gene_name": "Stac2", "gene_names_uniprotkb": "Stac2", "gene_names_refseq": "", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A0G2JU98", "url": "https://www.uniprot.org/uniprotkb/A0A0G2JU98" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TPLPPPSPPPASTDRGLPTP", "down_seq": "PSPCPVPRPLAPLKPVRLHS", "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_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "92", "end_pos": "92" } ] } ], "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": "A0A8I5Y222-1.101.101", "start_pos": 101, "end_pos": 101, "uniprot_canonical_ac": "A0A8I5Y222-1", "length": 813, "uniprot_id": "A0A8I5Y222_RAT", "protein_name": "Histone acetyltransferase", "refseq_ac": "NP_001019423", "refseq_name": "histone acetyltransferase KAT2B", "gene_name": "Kat2b", "gene_names_uniprotkb": "Kat2b", "gene_names_refseq": "AABR07066180.1; Kat2b; Pcaf", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5Y222", "url": "https://www.uniprot.org/uniprotkb/A0A8I5Y222" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ACKAEESCKCNGWKNPNPSP", "down_seq": "PPRGDLQQIIVSLTESCRSC", "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_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "101", "end_pos": "101" } ] } ], "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": "A0A8I5Y5U9-1.371.371", "start_pos": 371, "end_pos": 371, "uniprot_canonical_ac": "A0A8I5Y5U9-1", "length": 572, "uniprot_id": "A0A8I5Y5U9_RAT", "protein_name": "Nuclear receptor subfamily 6 group A member 1", "refseq_ac": "", "refseq_name": "", "gene_name": "Nr6a1", "gene_names_uniprotkb": "Nr6a1", "gene_names_refseq": "", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5Y5U9", "url": "https://www.uniprot.org/uniprotkb/A0A8I5Y5U9" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SAEDLEPLGTPMLIEDGYAV", "down_seq": "QAELFALLCRLADELLFRQI", "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": "Thr371", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "371", "end_pos": "371" } ] } ], "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": "A0A8I5YBL7-1.44.44", "start_pos": 44, "end_pos": 44, "uniprot_canonical_ac": "A0A8I5YBL7-1", "length": 1313, "uniprot_id": "A0A8I5YBL7_RAT", "protein_name": "Poly [ADP-ribose] polymerase", "refseq_ac": "", "refseq_name": "", "gene_name": "Tnks", "gene_names_uniprotkb": "Tnks", "gene_names_refseq": "", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5YBL7", "url": "https://www.uniprot.org/uniprotkb/A0A8I5YBL7" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ASAPPPPPPPPLSPGLAPGP", "down_seq": "PASPTAGGLAPFASPRHGLA", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr44", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "968", "end_pos": "968" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "A0A8I5YBL7-1.49.49", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "A0A8I5YBL7-1.463.463", "start_pos": 463, "end_pos": 463, "uniprot_canonical_ac": "A0A8I5YBL7-1", "length": 1313, "uniprot_id": "A0A8I5YBL7_RAT", "protein_name": "Poly [ADP-ribose] polymerase", "refseq_ac": "", "refseq_name": "", "gene_name": "Tnks", "gene_names_uniprotkb": "Tnks", "gene_names_refseq": "", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5YBL7", "url": "https://www.uniprot.org/uniprotkb/A0A8I5YBL7" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "HGADPTLVNCHGKSAVDMAP", "down_seq": "PELRERLTYEFKGHSLLQAA", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr463", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "968", "end_pos": "968" } ] } ], "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": "A0A8I5YBL7-1.49.49", "start_pos": 49, "end_pos": 49, "uniprot_canonical_ac": "A0A8I5YBL7-1", "length": 1313, "uniprot_id": "A0A8I5YBL7_RAT", "protein_name": "Poly [ADP-ribose] polymerase", "refseq_ac": "", "refseq_name": "", "gene_name": "Tnks", "gene_names_uniprotkb": "Tnks", "gene_names_refseq": "", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5YBL7", "url": "https://www.uniprot.org/uniprotkb/A0A8I5YBL7" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PPPPPPLSPGLAPGPTPASP", "down_seq": "AGGLAPFASPRHGLALPEGD", "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": "Thr49", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "968", "end_pos": "968" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "A0A8I5YBL7-1.44.44", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "A0A8I5YBL7-1.968.968", "start_pos": 968, "end_pos": 968, "uniprot_canonical_ac": "A0A8I5YBL7-1", "length": 1313, "uniprot_id": "A0A8I5YBL7_RAT", "protein_name": "Poly [ADP-ribose] polymerase", "refseq_ac": "", "refseq_name": "", "gene_name": "Tnks", "gene_names_uniprotkb": "Tnks", "gene_names_refseq": "", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5YBL7", "url": "https://www.uniprot.org/uniprotkb/A0A8I5YBL7" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PTCFKPQATVVSASLISPAS", "down_seq": "PSCLSAASSIDNLTGPLAEL", "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": "Thr968", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "44", "end_pos": "44" }, { "start_pos": "463", "end_pos": "463" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "968", "end_pos": "968" } ] } ], "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": "A0A8I5ZSS6-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "A0A8I5ZSS6-1", "length": 721, "uniprot_id": "A0A8I5ZSS6_RAT", "protein_name": "NOP2/Sun RNA methyltransferase family member 7", "refseq_ac": "NP_001387845", "refseq_name": "putative methyltransferase NSUN7 isoform 1", "gene_name": "Nsun7", "gene_names_uniprotkb": "Nsun7", "gene_names_refseq": "Nsun7; RGD1310137", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZSS6", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZSS6" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SKRKPSAALEKSSYPDSVYV", "down_seq": "AANIFQGIRIQRPADKVIIN", "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": "Thr53", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "53", "end_pos": "53" } ] } ], "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": "A0A8I5ZKZ5-1.228.228", "start_pos": 228, "end_pos": 228, "uniprot_canonical_ac": "A0A8I5ZKZ5-1", "length": 1074, "uniprot_id": "A0A8I5ZKZ5_RAT", "protein_name": "Gem (nuclear organelle) associated protein 4", "refseq_ac": "", "refseq_name": "", "gene_name": "Gemin4", "gene_names_uniprotkb": "Gemin4", "gene_names_refseq": "", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZKZ5", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZKZ5" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SSDEFSHPPKRFKSDPDVGP", "down_seq": "MPLLAMLLNGLKQIQKRILS", "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": "Thr228", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "228", "end_pos": "228" } ] } ], "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": "A0A8I6A272-1.1016.1016", "start_pos": 1016, "end_pos": 1016, "uniprot_canonical_ac": "A0A8I6A272-1", "length": 1318, "uniprot_id": "A0A8I6A272_RAT", "protein_name": "Ras association (RalGDS/AF-6) and pleckstrin homology domains 1", "refseq_ac": "XP_038939789", "refseq_name": "ras-associated and pleckstrin homology domains-containing protein 1 isoform X1", "gene_name": "Raph1", "gene_names_uniprotkb": "Raph1", "gene_names_refseq": "Raph1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6A272", "url": "https://www.uniprot.org/uniprotkb/A0A8I6A272" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PPPPPPPPPPPPPVSPMASP", "down_seq": "PDKGGSPGKKTSKMSSPGGK", "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": "Thr1016", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1041", "end_pos": "1041" }, { "start_pos": "777", "end_pos": "777" }, { "start_pos": "819", "end_pos": "819" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "931", "end_pos": "931" } ] } ], "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": "A0A8I6A272-1.1041.1041", "start_pos": 1041, "end_pos": 1041, "uniprot_canonical_ac": "A0A8I6A272-1", "length": 1318, "uniprot_id": "A0A8I6A272_RAT", "protein_name": "Ras association (RalGDS/AF-6) and pleckstrin homology domains 1", "refseq_ac": "XP_038939789", "refseq_name": "ras-associated and pleckstrin homology domains-containing protein 1 isoform X1", "gene_name": "Raph1", "gene_names_uniprotkb": "Raph1", "gene_names_refseq": "Raph1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6A272", "url": "https://www.uniprot.org/uniprotkb/A0A8I6A272" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GSPGKKTSKMSSPGGKKPPP", "down_seq": "PQRNSSIKSGSCAEHPEPKR", "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": "Thr1041", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1041", "end_pos": "1041" }, { "start_pos": "777", "end_pos": "777" }, { "start_pos": "819", "end_pos": "819" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "931", "end_pos": "931" } ] } ], "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": "A0A8I6A272-1.777.777", "start_pos": 777, "end_pos": 777, "uniprot_canonical_ac": "A0A8I6A272-1", "length": 1318, "uniprot_id": "A0A8I6A272_RAT", "protein_name": "Ras association (RalGDS/AF-6) and pleckstrin homology domains 1", "refseq_ac": "XP_038939789", "refseq_name": "ras-associated and pleckstrin homology domains-containing protein 1 isoform X1", "gene_name": "Raph1", "gene_names_uniprotkb": "Raph1", "gene_names_refseq": "Raph1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6A272", "url": "https://www.uniprot.org/uniprotkb/A0A8I6A272" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QIVVPPNGVIPPPPPPPPPP", "down_seq": "PGSAMAQLKPVPCAPSLPQF", "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": "Thr777", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1041", "end_pos": "1041" }, { "start_pos": "777", "end_pos": "777" }, { "start_pos": "819", "end_pos": "819" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "931", "end_pos": "931" } ] } ], "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": "A0A8I6A272-1.819.819", "start_pos": 819, "end_pos": 819, "uniprot_canonical_ac": "A0A8I6A272-1", "length": 1318, "uniprot_id": "A0A8I6A272_RAT", "protein_name": "Ras association (RalGDS/AF-6) and pleckstrin homology domains 1", "refseq_ac": "XP_038939789", "refseq_name": "ras-associated and pleckstrin homology domains-containing protein 1 isoform X1", "gene_name": "Raph1", "gene_names_uniprotkb": "Raph1", "gene_names_refseq": "Raph1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6A272", "url": "https://www.uniprot.org/uniprotkb/A0A8I6A272" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PQPPPLKIHQVQHLPQAAPP", "down_seq": "PPAAPLIPATVPPQAPPKPL", "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": "Thr819", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1041", "end_pos": "1041" }, { "start_pos": "777", "end_pos": "777" }, { "start_pos": "819", "end_pos": "819" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "931", "end_pos": "931" } ] } ], "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": "A0A8I6A272-1.862.862", "start_pos": 862, "end_pos": 862, "uniprot_canonical_ac": "A0A8I6A272-1", "length": 1318, "uniprot_id": "A0A8I6A272_RAT", "protein_name": "Ras association (RalGDS/AF-6) and pleckstrin homology domains 1", "refseq_ac": "XP_038939789", "refseq_name": "ras-associated and pleckstrin homology domains-containing protein 1 isoform X1", "gene_name": "Raph1", "gene_names_uniprotkb": "Raph1", "gene_names_refseq": "Raph1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6A272", "url": "https://www.uniprot.org/uniprotkb/A0A8I6A272" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IPPSASTKMVSPVVAQAVPP", "down_seq": "PAPPVPPTKKQPVFPVSHIP", "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": "Thr862", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1041", "end_pos": "1041" }, { "start_pos": "777", "end_pos": "777" }, { "start_pos": "819", "end_pos": "819" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "931", "end_pos": "931" } ] } ], "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": "A0A8I6A272-1.884.884", "start_pos": 884, "end_pos": 884, "uniprot_canonical_ac": "A0A8I6A272-1", "length": 1318, "uniprot_id": "A0A8I6A272_RAT", "protein_name": "Ras association (RalGDS/AF-6) and pleckstrin homology domains 1", "refseq_ac": "XP_038939789", "refseq_name": "ras-associated and pleckstrin homology domains-containing protein 1 isoform X1", "gene_name": "Raph1", "gene_names_uniprotkb": "Raph1", "gene_names_refseq": "Raph1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6A272", "url": "https://www.uniprot.org/uniprotkb/A0A8I6A272" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "APPVPPTKKQPVFPVSHIPP", "down_seq": "PPVQPTPHPPPTLPKQQSFG", "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": "Thr884", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1041", "end_pos": "1041" }, { "start_pos": "777", "end_pos": "777" }, { "start_pos": "819", "end_pos": "819" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "931", "end_pos": "931" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "A0A8I6A272-1.890.890", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "A0A8I6A272-1.890.890", "start_pos": 890, "end_pos": 890, "uniprot_canonical_ac": "A0A8I6A272-1", "length": 1318, "uniprot_id": "A0A8I6A272_RAT", "protein_name": "Ras association (RalGDS/AF-6) and pleckstrin homology domains 1", "refseq_ac": "XP_038939789", "refseq_name": "ras-associated and pleckstrin homology domains-containing protein 1 isoform X1", "gene_name": "Raph1", "gene_names_uniprotkb": "Raph1", "gene_names_refseq": "Raph1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6A272", "url": "https://www.uniprot.org/uniprotkb/A0A8I6A272" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TKKQPVFPVSHIPPTPPVQP", "down_seq": "PHPPPTLPKQQSFGVKPPPS", "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": "Thr890", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1041", "end_pos": "1041" }, { "start_pos": "777", "end_pos": "777" }, { "start_pos": "819", "end_pos": "819" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "931", "end_pos": "931" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "A0A8I6A272-1.884.884", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "A0A8I6A272-1.931.931", "start_pos": 931, "end_pos": 931, "uniprot_canonical_ac": "A0A8I6A272-1", "length": 1318, "uniprot_id": "A0A8I6A272_RAT", "protein_name": "Ras association (RalGDS/AF-6) and pleckstrin homology domains 1", "refseq_ac": "XP_038939789", "refseq_name": "ras-associated and pleckstrin homology domains-containing protein 1 isoform X1", "gene_name": "Raph1", "gene_names_uniprotkb": "Raph1", "gene_names_refseq": "Raph1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6A272", "url": "https://www.uniprot.org/uniprotkb/A0A8I6A272" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PLSPVPSVVKQMASQFPPPP", "down_seq": "PPPVDSQPLKPLPASVTPQS", "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": "Thr931", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1041", "end_pos": "1041" }, { "start_pos": "777", "end_pos": "777" }, { "start_pos": "819", "end_pos": "819" }, { "start_pos": "862", "end_pos": "862" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "890", "end_pos": "890" }, { "start_pos": "931", "end_pos": "931" } ] } ], "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": "A0A8I6AEA1-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "A0A8I6AEA1-1", "length": 1210, "uniprot_id": "A0A8I6AEA1_RAT", "protein_name": "VPS10 domain-containing receptor SorCS1", "refseq_ac": "XP_006231587", "refseq_name": "VPS10 domain-containing receptor SorCS1 isoform X7", "gene_name": "Sorcs1", "gene_names_uniprotkb": "Sorcs1", "gene_names_refseq": "Sorcs1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6AEA1", "url": "https://www.uniprot.org/uniprotkb/A0A8I6AEA1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Neuronal activity-driven O-GlcNAcylation promotes mitochondrial plasticity.", "journal": "Developmental cell", "date": "2024-08-19", "authors": "Yu Seungyoon B, Wang Haoming, Sanchez Richard G, Carlson Natasha M, Nguyen Khanh, Zhang Andrew, Papich Zachary D, Abushawish Ahmed A, Whiddon Zachary, Matysik Weronika, Zhang Jie, Whisenant Thomas C, Ghassemian Majid, Koberstein John N, Stewart Melissa L, Myers Samuel A, Pekkurnaz Gulcin", "evidence": [ { "database": "O-GlcNAc Database", "id": "A0A8I6AEA1", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=A0A8I6AEA1" } ], "reference": [ { "type": "PubMed", "id": "38843836", "url": "https://glygen.org/publication/PubMed/38843836" } ] } ], "crossref": [ { "id": "38843836", "url": "https://glygen.org/publication/PubMed/38843836", "database": "PubMed", "categories": [ "Other" ] }, { "id": "A0A8I6AEA1", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=A0A8I6AEA1", "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": "38843836", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/38843836" }, { "id": "A0A8I6AEA1", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=A0A8I6AEA1" } ] } ], "all_sites": [], "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": "A0A8I6AH70-1.176.176", "start_pos": 176, "end_pos": 176, "uniprot_canonical_ac": "A0A8I6AH70-1", "length": 923, "uniprot_id": "A0A8I6AH70_RAT", "protein_name": "Smoothelin", "refseq_ac": "XP_006251256", "refseq_name": "smoothelin isoform X1", "gene_name": "Smtn", "gene_names_uniprotkb": "Smtn", "gene_names_refseq": "Smtn", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6AH70", "url": "https://www.uniprot.org/uniprotkb/A0A8I6AH70" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GKVPEEEKQGQQTEVREPTP", "down_seq": "PEDTSQDVTTVTLLLRAPPG", "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": "Thr176", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "176", "end_pos": "176" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "359", "end_pos": "359" } ] } ], "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": "A0A8I6AH70-1.198.198", "start_pos": 198, "end_pos": 198, "uniprot_canonical_ac": "A0A8I6AH70-1", "length": 923, "uniprot_id": "A0A8I6AH70_RAT", "protein_name": "Smoothelin", "refseq_ac": "XP_006251256", "refseq_name": "smoothelin isoform X1", "gene_name": "Smtn", "gene_names_uniprotkb": "Smtn", "gene_names_refseq": "Smtn", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6AH70", "url": "https://www.uniprot.org/uniprotkb/A0A8I6AH70" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EDTSQDVTTVTLLLRAPPGG", "down_seq": "PSSPASPDSSPTTASPEPLL", "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": "Thr198", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "176", "end_pos": "176" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "359", "end_pos": "359" } ] } ], "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": "A0A8I6AH70-1.359.359", "start_pos": 359, "end_pos": 359, "uniprot_canonical_ac": "A0A8I6AH70-1", "length": 923, "uniprot_id": "A0A8I6AH70_RAT", "protein_name": "Smoothelin", "refseq_ac": "XP_006251256", "refseq_name": "smoothelin isoform X1", "gene_name": "Smtn", "gene_names_uniprotkb": "Smtn", "gene_names_refseq": "Smtn", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6AH70", "url": "https://www.uniprot.org/uniprotkb/A0A8I6AH70" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DSPVVARLQDGPPRTALASP", "down_seq": "PTRLPGPSLMSTTLASSSSS", "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": "Thr359", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "176", "end_pos": "176" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "359", "end_pos": "359" } ] } ], "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": "A0A8I5ZNS1-1.1305.1305", "start_pos": 1305, "end_pos": 1305, "uniprot_canonical_ac": "A0A8I5ZNS1-1", "length": 1373, "uniprot_id": "A0A8I5ZNS1_RAT", "protein_name": "ATPase family AAA domain-containing protein 2", "refseq_ac": "NP_001128351", "refseq_name": "ATPase family AAA domain-containing protein 2", "gene_name": "Atad2", "gene_names_uniprotkb": "Atad2", "gene_names_refseq": "Atad2", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZNS1", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZNS1" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QVEQQQLIGMEKALAILSQP", "down_seq": "PSLVVDHKHLKNLLKTVVKK", "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": "Thr1305", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1305", "end_pos": "1305" } ] } ], "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": "A0A8I5ZNY2-1.478.478", "start_pos": 478, "end_pos": 478, "uniprot_canonical_ac": "A0A8I5ZNY2-1", "length": 491, "uniprot_id": "A0A8I5ZNY2_RAT", "protein_name": "One cut domain family member", "refseq_ac": "NP_001381886", "refseq_name": "one cut domain family member 3", "gene_name": "Onecut3", "gene_names_uniprotkb": "Onecut3", "gene_names_refseq": "Onecut3", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZNY2", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZNY2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NFFMNARRRCMNRWAEEPGA", "down_seq": "PGTATATATFSKA", "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": "Thr478", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "478", "end_pos": "478" } ] } ], "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": "A0A8I5ZP83-1.21.21", "start_pos": 21, "end_pos": 21, "uniprot_canonical_ac": "A0A8I5ZP83-1", "length": 224, "uniprot_id": "A0A8I5ZP83_RAT", "protein_name": "Charged multivesicular body protein 4B", "refseq_ac": "NP_001386586", "refseq_name": "charged multivesicular body protein 4b", "gene_name": "Chmp4b", "gene_names_uniprotkb": "Chmp4b", "gene_names_refseq": "Chmp4b; RGD1309846; RGD1565889", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZP83", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZP83" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MSVFGKLFGAGGGKAGKGGP", "down_seq": "PQEAIQRLRDTEEMLSKKQE", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr21", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" } ] } ], "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": "A0A8I5ZPL0-1.1026.1026", "start_pos": 1026, "end_pos": 1026, "uniprot_canonical_ac": "A0A8I5ZPL0-1", "length": 2060, "uniprot_id": "A0A8I5ZPL0_RAT", "protein_name": "Tudor domain containing 15", "refseq_ac": "", "refseq_name": "", "gene_name": "Tdrd15", "gene_names_uniprotkb": "Tdrd15", "gene_names_refseq": "", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZPL0", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZPL0" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RLCISQYIEDGLSYRALVKP", "down_seq": "ASASDTCVYFVDYGNEQLVK", "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": "Thr1026", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1026", "end_pos": "1026" } ] } ], "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": "A0A8I5ZPX3-1.1289.1289", "start_pos": 1289, "end_pos": 1289, "uniprot_canonical_ac": "A0A8I5ZPX3-1", "length": 1386, "uniprot_id": "A0A8I5ZPX3_RAT", "protein_name": "YEATS domain-containing protein 2", "refseq_ac": "XP_063126781", "refseq_name": "YEATS domain-containing protein 2 isoform X2", "gene_name": "Yeats2", "gene_names_uniprotkb": "Yeats2", "gene_names_refseq": "RGD1566176; Yeats2", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZPX3", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZPX3" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TNIKKEQEEKQEEMRFYLPP", "down_seq": "PGSGFVGDITQKIGITLQPV", "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": "Thr1289", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1289", "end_pos": "1289" }, { "start_pos": "978", "end_pos": "978" } ] } ], "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": "A0A8I5ZPX3-1.978.978", "start_pos": 978, "end_pos": 978, "uniprot_canonical_ac": "A0A8I5ZPX3-1", "length": 1386, "uniprot_id": "A0A8I5ZPX3_RAT", "protein_name": "YEATS domain-containing protein 2", "refseq_ac": "XP_063126781", "refseq_name": "YEATS domain-containing protein 2 isoform X2", "gene_name": "Yeats2", "gene_names_uniprotkb": "Yeats2", "gene_names_refseq": "RGD1566176; Yeats2", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZPX3", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZPX3" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QVCVSQATMATCKATAPAAV", "down_seq": "AASLVSAPSSISGKATVSGL", "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": "Thr978", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1289", "end_pos": "1289" }, { "start_pos": "978", "end_pos": "978" } ] } ], "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": "A0A8I5ZQ55-1.1835.1835", "start_pos": 1835, "end_pos": 1835, "uniprot_canonical_ac": "A0A8I5ZQ55-1", "length": 5075, "uniprot_id": "A0A8I5ZQ55_RAT", "protein_name": "Hemicentin 2", "refseq_ac": "XP_038962099", "refseq_name": "hemicentin-2", "gene_name": "Hmcn2", "gene_names_uniprotkb": "Hmcn2", "gene_names_refseq": "Hmcn2", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZQ55", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZQ55" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NLTAPFLQPVTLQCTGTGVP", "down_seq": "PSLRWWKDGVAVATSGGNLQ", "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": "Thr1835", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1835", "end_pos": "1835" }, { "start_pos": "2008", "end_pos": "2008" }, { "start_pos": "2027", "end_pos": "2027" }, { "start_pos": "2685", "end_pos": "2685" }, { "start_pos": "3159", "end_pos": "3159" } ] } ], "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": "A0A8I5ZQ55-1.2008.2008", "start_pos": 2008, "end_pos": 2008, "uniprot_canonical_ac": "A0A8I5ZQ55-1", "length": 5075, "uniprot_id": "A0A8I5ZQ55_RAT", "protein_name": "Hemicentin 2", "refseq_ac": "XP_038962099", "refseq_name": "hemicentin-2", "gene_name": "Hmcn2", "gene_names_uniprotkb": "Hmcn2", "gene_names_refseq": "Hmcn2", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZQ55", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZQ55" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SLPGPVVLGTPFRLTCNATG", "down_seq": "PSPMLLWLKDGNPVSPEGTP", "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": "Thr2008", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1835", "end_pos": "1835" }, { "start_pos": "2008", "end_pos": "2008" }, { "start_pos": "2027", "end_pos": "2027" }, { "start_pos": "2685", "end_pos": "2685" }, { "start_pos": "3159", "end_pos": "3159" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "A0A8I5ZQ55-1.2027.2027", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "A0A8I5ZQ55-1.2027.2027", "start_pos": 2027, "end_pos": 2027, "uniprot_canonical_ac": "A0A8I5ZQ55-1", "length": 5075, "uniprot_id": "A0A8I5ZQ55_RAT", "protein_name": "Hemicentin 2", "refseq_ac": "XP_038962099", "refseq_name": "hemicentin-2", "gene_name": "Hmcn2", "gene_names_uniprotkb": "Hmcn2", "gene_names_refseq": "Hmcn2", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZQ55", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZQ55" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GTPSPMLLWLKDGNPVSPEG", "down_seq": "PGLKVFPGGQVLTVASARAS", "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": "Thr2027", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1835", "end_pos": "1835" }, { "start_pos": "2008", "end_pos": "2008" }, { "start_pos": "2027", "end_pos": "2027" }, { "start_pos": "2685", "end_pos": "2685" }, { "start_pos": "3159", "end_pos": "3159" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "A0A8I5ZQ55-1.2008.2008", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "A0A8I5ZQ55-1.2685.2685", "start_pos": 2685, "end_pos": 2685, "uniprot_canonical_ac": "A0A8I5ZQ55-1", "length": 5075, "uniprot_id": "A0A8I5ZQ55_RAT", "protein_name": "Hemicentin 2", "refseq_ac": "XP_038962099", "refseq_name": "hemicentin-2", "gene_name": "Hmcn2", "gene_names_uniprotkb": "Hmcn2", "gene_names_refseq": "Hmcn2", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZQ55", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZQ55" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "CECWAVPPPSISWYKDGRPV", "down_seq": "PSQRLSVLGEGRLLQIQPTK", "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": "Thr2685", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1835", "end_pos": "1835" }, { "start_pos": "2008", "end_pos": "2008" }, { "start_pos": "2027", "end_pos": "2027" }, { "start_pos": "2685", "end_pos": "2685" }, { "start_pos": "3159", "end_pos": "3159" } ] } ], "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": "A0A8I5ZQ55-1.3159.3159", "start_pos": 3159, "end_pos": 3159, "uniprot_canonical_ac": "A0A8I5ZQ55-1", "length": 5075, "uniprot_id": "A0A8I5ZQ55_RAT", "protein_name": "Hemicentin 2", "refseq_ac": "XP_038962099", "refseq_name": "hemicentin-2", "gene_name": "Hmcn2", "gene_names_uniprotkb": "Hmcn2", "gene_names_refseq": "Hmcn2", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZQ55", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZQ55" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NQVAGRPLVLACDVSGVPAP", "down_seq": "VTWLKDRLPVESSMGQGVVS", "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": "Thr3159", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1835", "end_pos": "1835" }, { "start_pos": "2008", "end_pos": "2008" }, { "start_pos": "2027", "end_pos": "2027" }, { "start_pos": "2685", "end_pos": "2685" }, { "start_pos": "3159", "end_pos": "3159" } ] } ], "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": "A0A8I5ZS42-1.311.311", "start_pos": 311, "end_pos": 311, "uniprot_canonical_ac": "A0A8I5ZS42-1", "length": 365, "uniprot_id": "A0A8I5ZS42_RAT", "protein_name": "Uncharacterized protein", "refseq_ac": "", "refseq_name": "", "gene_name": "ENSRNOG00000069809", "gene_names_uniprotkb": "ENSRNOG00000069809; LOC102548568", "gene_names_refseq": "", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZS42", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZS42" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PRPLQLRPLPPRPEARPLPP", "down_seq": "PEARPLPPTPEPEPEPELKP", "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": "Thr311", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "311", "end_pos": "311" }, { "start_pos": "320", "end_pos": "320" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "A0A8I5ZS42-1.320.320", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "A0A8I5ZS42-1.320.320", "start_pos": 320, "end_pos": 320, "uniprot_canonical_ac": "A0A8I5ZS42-1", "length": 365, "uniprot_id": "A0A8I5ZS42_RAT", "protein_name": "Uncharacterized protein", "refseq_ac": "", "refseq_name": "", "gene_name": "ENSRNOG00000069809", "gene_names_uniprotkb": "ENSRNOG00000069809; LOC102548568", "gene_names_refseq": "", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZS42", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZS42" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PPRPEARPLPPTPEARPLPP", "down_seq": "PEPEPEPELKPEAKPEKKQA", "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": "Thr320", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "311", "end_pos": "311" }, { "start_pos": "320", "end_pos": "320" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "A0A8I5ZS42-1.311.311", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] } ] }, { "id": "A0A8I5ZSU2-1.390.390", "start_pos": 390, "end_pos": 390, "uniprot_canonical_ac": "A0A8I5ZSU2-1", "length": 564, "uniprot_id": "A0A8I5ZSU2_RAT", "protein_name": "CCM2 like scaffold protein", "refseq_ac": "XP_038962791", "refseq_name": "cerebral cavernous malformations 2 protein-like isoform X1", "gene_name": "Ccm2l", "gene_names_uniprotkb": "Ccm2l; RGD1305202", "gene_names_refseq": "Ccm2l", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZSU2", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZSU2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "CCSSFNGSQDTFEACYSGAS", "down_seq": "PSFHSSHCSSIDHSSWAFEQ", "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_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "390", "end_pos": "390" } ] } ], "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": "A0A8I6A895-1.819.819", "start_pos": 819, "end_pos": 819, "uniprot_canonical_ac": "A0A8I6A895-1", "length": 1371, "uniprot_id": "A0A8I6A895_RAT", "protein_name": "Zinc finger MYM-type containing 3", "refseq_ac": "NP_001035245", "refseq_name": "zinc finger MYM-type protein 3", "gene_name": "Zmym3", "gene_names_uniprotkb": "Zmym3", "gene_names_refseq": "Zmym3", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6A895", "url": "https://www.uniprot.org/uniprotkb/A0A8I6A895" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PEENENLGKIPVKRVISSVP", "down_seq": "PPPPPPPATPRKNKAAMCKP", "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": "Thr819", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "819", "end_pos": "819" } ] } ], "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": "A0A8I5ZVH2-1.2096.2096", "start_pos": 2096, "end_pos": 2096, "uniprot_canonical_ac": "A0A8I5ZVH2-1", "length": 3111, "uniprot_id": "A0A8I5ZVH2_RAT", "protein_name": "Bromodomain PHD finger transcription factor", "refseq_ac": "NP_001121007", "refseq_name": "nucleosome-remodeling factor subunit BPTF", "gene_name": "Bptf", "gene_names_uniprotkb": "Bptf", "gene_names_refseq": "Bptf; Falz", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZVH2", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZVH2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TSSTVSPAQKVMVAPLSGSV", "down_seq": "PGTKMVLATKVGSPATVTFQ", "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": "Thr2096", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2096", "end_pos": "2096" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "2152", "end_pos": "2152" }, { "start_pos": "2491", "end_pos": "2491" }, { "start_pos": "2799", "end_pos": "2799" } ] } ], "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": "A0A8I5ZVH2-1.213.213", "start_pos": 213, "end_pos": 213, "uniprot_canonical_ac": "A0A8I5ZVH2-1", "length": 3111, "uniprot_id": "A0A8I5ZVH2_RAT", "protein_name": "Bromodomain PHD finger transcription factor", "refseq_ac": "NP_001121007", "refseq_name": "nucleosome-remodeling factor subunit BPTF", "gene_name": "Bptf", "gene_names_uniprotkb": "Bptf", "gene_names_refseq": "Bptf; Falz", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZVH2", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZVH2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DDDASYCTESSFRSHSTYSS", "down_seq": "PGRRKPRVHRPRSPILEEKD", "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": "Thr213", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2096", "end_pos": "2096" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "2152", "end_pos": "2152" }, { "start_pos": "2491", "end_pos": "2491" }, { "start_pos": "2799", "end_pos": "2799" } ] } ], "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": "A0A8I5ZVH2-1.2152.2152", "start_pos": 2152, "end_pos": 2152, "uniprot_canonical_ac": "A0A8I5ZVH2-1", "length": 3111, "uniprot_id": "A0A8I5ZVH2_RAT", "protein_name": "Bromodomain PHD finger transcription factor", "refseq_ac": "NP_001121007", "refseq_name": "nucleosome-remodeling factor subunit BPTF", "gene_name": "Bptf", "gene_names_uniprotkb": "Bptf", "gene_names_refseq": "Bptf; Falz", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZVH2", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZVH2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GQSNSGVVQVQQKVLGIIPS", "down_seq": "AGPSQQTFTSFQPRTATVTI", "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": "reported site T2086 is on non-canonical isoform A0A0G2K7N8-1 which maps to canonical isoform site A0A8I5ZVH2-1:2152", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr2152", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2096", "end_pos": "2096" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "2152", "end_pos": "2152" }, { "start_pos": "2491", "end_pos": "2491" }, { "start_pos": "2799", "end_pos": "2799" } ] } ], "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": "A0A8I5ZVH2-1.2491.2491", "start_pos": 2491, "end_pos": 2491, "uniprot_canonical_ac": "A0A8I5ZVH2-1", "length": 3111, "uniprot_id": "A0A8I5ZVH2_RAT", "protein_name": "Bromodomain PHD finger transcription factor", "refseq_ac": "NP_001121007", "refseq_name": "nucleosome-remodeling factor subunit BPTF", "gene_name": "Bptf", "gene_names_uniprotkb": "Bptf", "gene_names_refseq": "Bptf; Falz", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZVH2", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZVH2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PVRVQSPPLTRIRPSTPSQV", "down_seq": "PGQQPQVQTTASQPIPIPPP", "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": "Thr2491", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2096", "end_pos": "2096" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "2152", "end_pos": "2152" }, { "start_pos": "2491", "end_pos": "2491" }, { "start_pos": "2799", "end_pos": "2799" } ] } ], "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": "A0A8I5ZVH2-1.2799.2799", "start_pos": 2799, "end_pos": 2799, "uniprot_canonical_ac": "A0A8I5ZVH2-1", "length": 3111, "uniprot_id": "A0A8I5ZVH2_RAT", "protein_name": "Bromodomain PHD finger transcription factor", "refseq_ac": "NP_001121007", "refseq_name": "nucleosome-remodeling factor subunit BPTF", "gene_name": "Bptf", "gene_names_uniprotkb": "Bptf", "gene_names_refseq": "Bptf; Falz", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZVH2", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZVH2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KMKREREMAQVVQANAAAGP", "down_seq": "PSVPAPVPAPAPAPAAPPAP", "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": "Thr2799", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "2096", "end_pos": "2096" }, { "start_pos": "213", "end_pos": "213" }, { "start_pos": "2152", "end_pos": "2152" }, { "start_pos": "2491", "end_pos": "2491" }, { "start_pos": "2799", "end_pos": "2799" } ] } ], "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": "A0A8I5ZWF2-1.537.537", "start_pos": 537, "end_pos": 537, "uniprot_canonical_ac": "A0A8I5ZWF2-1", "length": 1871, "uniprot_id": "A0A8I5ZWF2_RAT", "protein_name": "Tetratricopeptide repeat domain 6", "refseq_ac": "NP_001419024", "refseq_name": "tetratricopeptide repeat protein 6", "gene_name": "Ttc6", "gene_names_uniprotkb": "Ttc6", "gene_names_refseq": "RGD1560556; Ttc6", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZWF2", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZWF2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RERLLFGVPAMSEMQKYTGV", "down_seq": "PASAEGLPGSEQTNQREANK", "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": "Thr537", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "537", "end_pos": "537" } ] } ], "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": "A0A8I5ZYX6-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "A0A8I5ZYX6-1", "length": 1097, "uniprot_id": "A0A8I5ZYX6_RAT", "protein_name": "Formin-like 1", "refseq_ac": "NP_001426912", "refseq_name": "formin-like protein 1 isoform 2", "gene_name": "Fmnl1", "gene_names_uniprotkb": "Fmnl1", "gene_names_refseq": "Fmnl1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZYX6", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZYX6" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MGNAAGSAEQPAGP", "down_seq": "ASPPKQPAVPKQPMPAAGEL", "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": "Thr15", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "544", "end_pos": "544" } ] } ], "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": "A0A8I5ZYX6-1.474.474", "start_pos": 474, "end_pos": 474, "uniprot_canonical_ac": "A0A8I5ZYX6-1", "length": 1097, "uniprot_id": "A0A8I5ZYX6_RAT", "protein_name": "Formin-like 1", "refseq_ac": "NP_001426912", "refseq_name": "formin-like protein 1 isoform 2", "gene_name": "Fmnl1", "gene_names_uniprotkb": "Fmnl1", "gene_names_refseq": "Fmnl1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZYX6", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZYX6" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ESTPMVTSRRIPEPEKVPAP", "down_seq": "VVRPSALELKVEELEEKGLI", "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": "Thr474", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "544", "end_pos": "544" } ] } ], "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": "A0A8I5ZYX6-1.515.515", "start_pos": 515, "end_pos": 515, "uniprot_canonical_ac": "A0A8I5ZYX6-1", "length": 1097, "uniprot_id": "A0A8I5ZYX6_RAT", "protein_name": "Formin-like 1", "refseq_ac": "NP_001426912", "refseq_name": "formin-like protein 1 isoform 2", "gene_name": "Fmnl1", "gene_names_uniprotkb": "Fmnl1", "gene_names_refseq": "Fmnl1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZYX6", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZYX6" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RILRGPGDVVSIEILPGAAA", "down_seq": "PSGDDAPAPRVSTDSPSTAE", "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": "Thr515", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "544", "end_pos": "544" } ] } ], "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": "A0A8I5ZYX6-1.544.544", "start_pos": 544, "end_pos": 544, "uniprot_canonical_ac": "A0A8I5ZYX6-1", "length": 1097, "uniprot_id": "A0A8I5ZYX6_RAT", "protein_name": "Formin-like 1", "refseq_ac": "NP_001426912", "refseq_name": "formin-like protein 1 isoform 2", "gene_name": "Fmnl1", "gene_names_uniprotkb": "Fmnl1", "gene_names_refseq": "Fmnl1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZYX6", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZYX6" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PRVSTDSPSTAESVPEAASP", "down_seq": "PPPPPPPPPPLPNLQSQQEA", "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": "Thr544", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "15", "end_pos": "15" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "544", "end_pos": "544" } ] } ], "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": "A0A8I5ZZ05-1.1781.1781", "start_pos": 1781, "end_pos": 1781, "uniprot_canonical_ac": "A0A8I5ZZ05-1", "length": 1897, "uniprot_id": "A0A8I5ZZ05_RAT", "protein_name": "Microtubule crosslinking factor 2", "refseq_ac": "XP_017447755", "refseq_name": "microtubule cross-linking factor 2 isoform X1", "gene_name": "Mtcl2", "gene_names_uniprotkb": "Mtcl2; Soga1", "gene_names_refseq": "Mtcl2", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I5ZZ05", "url": "https://www.uniprot.org/uniprotkb/A0A8I5ZZ05" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PKYGIVQEFFRNVCGRAPSP", "down_seq": "TAAGEESSKKPEPLSPASYH", "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": "Thr1781", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1781", "end_pos": "1781" } ] } ], "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": "A0A8I6AAI9-1.42.42", "start_pos": 42, "end_pos": 42, "uniprot_canonical_ac": "A0A8I6AAI9-1", "length": 103, "uniprot_id": "A0A8I6AAI9_RAT", "protein_name": "ATP synthase F(0) complex subunit g, mitochondrial", "refseq_ac": "XP_038934107", "refseq_name": "ATP synthase subunit g, mitochondrial-like", "gene_name": "Atp5mgl3", "gene_names_uniprotkb": "Atp5mgl3; LOC679690", "gene_names_refseq": "Atp5mgl3", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6AAI9", "url": "https://www.uniprot.org/uniprotkb/A0A8I6AAI9" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "YLKPRLATFLHYAKVELVPP", "down_seq": "PGEIPTAIQSMKKIIQSAKT", "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": "Thr42", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "42", "end_pos": "42" } ] } ], "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": "A0A8I6ACL2-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "A0A8I6ACL2-1", "length": 2131, "uniprot_id": "A0A8I6ACL2_RAT", "protein_name": "Dedicator of cytokinesis 7", "refseq_ac": "NP_001402814", "refseq_name": "dedicator of cytokinesis protein 7 isoform 1", "gene_name": "Dock7", "gene_names_uniprotkb": "Dock7", "gene_names_refseq": "Dock7", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6ACL2", "url": "https://www.uniprot.org/uniprotkb/A0A8I6ACL2" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [ { "title": "Neuronal activity-driven O-GlcNAcylation promotes mitochondrial plasticity.", "journal": "Developmental cell", "date": "2024-08-19", "authors": "Yu Seungyoon B, Wang Haoming, Sanchez Richard G, Carlson Natasha M, Nguyen Khanh, Zhang Andrew, Papich Zachary D, Abushawish Ahmed A, Whiddon Zachary, Matysik Weronika, Zhang Jie, Whisenant Thomas C, Ghassemian Majid, Koberstein John N, Stewart Melissa L, Myers Samuel A, Pekkurnaz Gulcin", "evidence": [ { "database": "O-GlcNAc Database", "id": "A0A8I6ACL2", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=A0A8I6ACL2" } ], "reference": [ { "type": "PubMed", "id": "38843836", "url": "https://glygen.org/publication/PubMed/38843836" } ] } ], "crossref": [ { "id": "38843836", "url": "https://glygen.org/publication/PubMed/38843836", "database": "PubMed", "categories": [ "Other" ] }, { "id": "A0A8I6ACL2", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=A0A8I6ACL2", "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": "38843836", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/38843836" }, { "id": "A0A8I6ACL2", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=A0A8I6ACL2" } ] } ], "all_sites": [], "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": "A0A8I6AEL7-1.277.277", "start_pos": 277, "end_pos": 277, "uniprot_canonical_ac": "A0A8I6AEL7-1", "length": 840, "uniprot_id": "A0A8I6AEL7_RAT", "protein_name": "Protein phosphatase 4 regulatory subunit 3C like 1", "refseq_ac": "XP_038956417", "refseq_name": "protein PPP4R3C", "gene_name": "Ppp4r3cl1", "gene_names_uniprotkb": "Ppp4r3cl1; AABR07038788.1", "gene_names_refseq": "Ppp4r3cl1", "species": [ { "name": "Rattus norvegicus", "taxid": 10116, "evidence": [ { "database": "UniProtKB", "id": "A0A8I6AEL7", "url": "https://www.uniprot.org/uniprotkb/A0A8I6AEL7" } ], "common_name": "Rat", "glygen_name": "Rat", "reference_species": "Rattus norvegicus [10116]" } ], "publication": [], "crossref": [ { "id": "GLY_001157", "url": "https://data.glygen.org/GLY_001157", "database": "GlyGen", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LRKKIQQTYRMQYIYDIVLP", "down_seq": "PSIFEVNLLHDLSTMIFFNK", "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": "Thr277", "evidence": [ { "id": "GLY_001157", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001157" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "277", "end_pos": "277" } ] } ], "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": "P53040-1.12.12", "start_pos": 12, "end_pos": 12, "uniprot_canonical_ac": "P53040-1", "length": 516, "uniprot_id": "TAF6_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF6", "refseq_ac": "NP_011403", "refseq_name": "TATA-binding protein-associated factor TAF6", "gene_name": "TAF6", "gene_names_uniprotkb": "TAF6; G2985; TAF60", "gene_names_refseq": "TAF60; TAF6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53040", "url": "https://www.uniprot.org/uniprotkb/P53040" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53040", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53040" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003080", "url": "https://www.yeastgenome.org/locus/S000003080", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53040", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53040", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSTQQQSYTIW", "down_seq": "PQDTVKDVAESLGLENINDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003080", "url": "https://www.yeastgenome.org/locus/S000003080" }, { "database": "iPTMnet", "id": "P53040", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53040" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser12" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "95", "end_pos": "95" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53040-1.180.180", "start_pos": 180, "end_pos": 180, "uniprot_canonical_ac": "P53040-1", "length": 516, "uniprot_id": "TAF6_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF6", "refseq_ac": "NP_011403", "refseq_name": "TATA-binding protein-associated factor TAF6", "gene_name": "TAF6", "gene_names_uniprotkb": "TAF6; G2985; TAF60", "gene_names_refseq": "TAF60; TAF6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53040", "url": "https://www.uniprot.org/uniprotkb/P53040" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53040", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53040" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003080", "url": "https://www.yeastgenome.org/locus/S000003080", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53040", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53040", "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": "SQPPFIRGAIVTALNDNSLQ", "down_seq": "PVTSTTASASVTDTGASQHL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003080", "url": "https://www.yeastgenome.org/locus/S000003080" }, { "database": "iPTMnet", "id": "P53040", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53040" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr180" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "95", "end_pos": "95" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53040-1.95.95", "start_pos": 95, "end_pos": 95, "uniprot_canonical_ac": "P53040-1", "length": 516, "uniprot_id": "TAF6_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF6", "refseq_ac": "NP_011403", "refseq_name": "TATA-binding protein-associated factor TAF6", "gene_name": "TAF6", "gene_names_uniprotkb": "TAF6; G2985; TAF60", "gene_names_refseq": "TAF60; TAF6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53040", "url": "https://www.uniprot.org/uniprotkb/P53040" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53040", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53040" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003080", "url": "https://www.yeastgenome.org/locus/S000003080", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53040", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53040", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VLNVEPLYGYYDGSEVNKAV", "down_seq": "FSKVNTSGGQSVYYLDEEEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003080", "url": "https://www.yeastgenome.org/locus/S000003080" }, { "database": "iPTMnet", "id": "P53040", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53040" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser95" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "12", "end_pos": "12" }, { "start_pos": "180", "end_pos": "180" }, { "start_pos": "95", "end_pos": "95" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53067-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P53067-1", "length": 1004, "uniprot_id": "IMB5_YEAST", "protein_name": "Importin subunit beta-5", "refseq_ac": "NP_011273", "refseq_name": "karyopherin KAP114", "gene_name": "KAP114", "gene_names_uniprotkb": "KAP114; HRC1004", "gene_names_refseq": "KAP114", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53067", "url": "https://www.uniprot.org/uniprotkb/P53067" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003210", "url": "https://www.yeastgenome.org/locus/S000003210", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067", "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": "INELIIGAQSADKHTREVAE", "down_seq": "QLLQWCDSDASQVFKALANV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003210", "url": "https://www.yeastgenome.org/locus/S000003210" }, { "database": "iPTMnet", "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr23" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P53067-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53067-1.34.34", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53067-1.31.31", "start_pos": 31, "end_pos": 31, "uniprot_canonical_ac": "P53067-1", "length": 1004, "uniprot_id": "IMB5_YEAST", "protein_name": "Importin subunit beta-5", "refseq_ac": "NP_011273", "refseq_name": "karyopherin KAP114", "gene_name": "KAP114", "gene_names_uniprotkb": "KAP114; HRC1004", "gene_names_refseq": "KAP114", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53067", "url": "https://www.uniprot.org/uniprotkb/P53067" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003210", "url": "https://www.yeastgenome.org/locus/S000003210", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067", "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": "QSADKHTREVAETQLLQWCD", "down_seq": "DASQVFKALANVALQHEASL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003210", "url": "https://www.yeastgenome.org/locus/S000003210" }, { "database": "iPTMnet", "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser31" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53067-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53067-1.34.34", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53067-1.34.34", "start_pos": 34, "end_pos": 34, "uniprot_canonical_ac": "P53067-1", "length": 1004, "uniprot_id": "IMB5_YEAST", "protein_name": "Importin subunit beta-5", "refseq_ac": "NP_011273", "refseq_name": "karyopherin KAP114", "gene_name": "KAP114", "gene_names_uniprotkb": "KAP114; HRC1004", "gene_names_refseq": "KAP114", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53067", "url": "https://www.uniprot.org/uniprotkb/P53067" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003210", "url": "https://www.yeastgenome.org/locus/S000003210", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067", "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": "DKHTREVAETQLLQWCDSDA", "down_seq": "QVFKALANVALQHEASLESR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003210", "url": "https://www.yeastgenome.org/locus/S000003210" }, { "database": "iPTMnet", "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser34" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53067-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53067-1.31.31", "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": "P53067-1.865.865", "start_pos": 865, "end_pos": 865, "uniprot_canonical_ac": "P53067-1", "length": 1004, "uniprot_id": "IMB5_YEAST", "protein_name": "Importin subunit beta-5", "refseq_ac": "NP_011273", "refseq_name": "karyopherin KAP114", "gene_name": "KAP114", "gene_names_uniprotkb": "KAP114; HRC1004", "gene_names_refseq": "KAP114", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53067", "url": "https://www.uniprot.org/uniprotkb/P53067" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003210", "url": "https://www.yeastgenome.org/locus/S000003210", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QKVVVNGNLIPYEGDLIITR", "down_seq": "MAKKMPDRYVQVPLYTKIIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003210", "url": "https://www.yeastgenome.org/locus/S000003210" }, { "database": "iPTMnet", "id": "P53067", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53067" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser865" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "23", "end_pos": "23" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.328.328", "start_pos": 328, "end_pos": 328, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "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": "P53091", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53091" }, { "database": "O-GlcNAc Atlas", "id": "P53091", "url": "https://oglcnac.org/atlas/detail/P53091" } ], "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": "P53091", "url": "https://oglcnac.org/atlas/detail/P53091", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SFTCDMCRAIVDNVEQSFKY", "down_seq": "EPTFCPNPSCENRAFWTLNV", "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": "Thr328", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53091", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53091" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53091-1.331.331", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53091-1.337.337", "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": "P53091-1.331.331", "start_pos": 331, "end_pos": 331, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "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": "P53091", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53091" }, { "database": "O-GlcNAc Atlas", "id": "P53091", "url": "https://oglcnac.org/atlas/detail/P53091" } ], "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": "P53091", "url": "https://oglcnac.org/atlas/detail/P53091", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "CDMCRAIVDNVEQSFKYTEP", "down_seq": "FCPNPSCENRAFWTLNVTRS", "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": "Thr331", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53091", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53091" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53091-1.328.328", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53091-1.337.337", "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": "P53091-1.337.337", "start_pos": 337, "end_pos": 337, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "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": "P53091", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53091" }, { "database": "O-GlcNAc Atlas", "id": "P53091", "url": "https://oglcnac.org/atlas/detail/P53091" } ], "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": "P53091", "url": "https://oglcnac.org/atlas/detail/P53091", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IVDNVEQSFKYTEPTFCPNP", "down_seq": "CENRAFWTLNVTRSRFLDWQ", "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": "Ser337", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53091", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53091" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53091-1.328.328", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53091-1.331.331", "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": "P53091-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "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": "P53091", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53091" }, { "database": "O-GlcNAc Atlas", "id": "P53091", "url": "https://oglcnac.org/atlas/detail/P53091" } ], "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": "P53091", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53091", "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": "P53091", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53091" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53091-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53091-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53091-1.19.19", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.581.581", "start_pos": 581, "end_pos": 581, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The Mcm2-7 complex has in vitro helicase activity.", "journal": "Molecular cell", "date": "2008-07-25", "authors": "Bochman Matthew L, Schwacha Anthony", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "reference": [ { "type": "PubMed", "id": "18657510", "url": "https://glygen.org/publication/PubMed/18657510" } ] } ], "crossref": [ { "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18657510", "url": "https://glygen.org/publication/PubMed/18657510", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "EGIKLRGDINICVVGDPSTS", "down_seq": "SQFLKYVVGFAPRSVYTSGK", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Loss of MCM2-7 complex helicase activity.", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "PubMed", "id": "18657510", "url": "https://glygen.org/publication/PubMed/18657510" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "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": "P53091-1.1016.1016", "start_pos": 1016, "end_pos": 1016, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Structural mechanism for the selective phosphorylation of DNA-loaded MCM double hexamers by the Dbf4-dependent kinase.", "journal": "Nature structural & molecular biology", "date": "2022-01", "authors": "Greiwe Julia F, Miller Thomas C R, Locke Julia, Martino Fabrizio, Howell Steven, Schreiber Anne, Nans Andrea, Diffley John F X, Costa Alessandro", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KTVYVIHPNCEVLDQLEPQD", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ], "site_lbl": "Ser1016" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53091-1.1017.1017", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.1017.1017", "start_pos": 1017, "end_pos": 1017, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "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": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "Structural mechanism for the selective phosphorylation of DNA-loaded MCM double hexamers by the Dbf4-dependent kinase.", "journal": "Nature structural & molecular biology", "date": "2022-01", "authors": "Greiwe Julia F, Miller Thomas C R, Locke Julia, Martino Fabrizio, Howell Steven, Schreiber Anne, Nans Andrea, Diffley John F X, Costa Alessandro", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TVYVIHPNCEVLDQLEPQDS", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ], "site_lbl": "Ser1017" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53091-1.1016.1016", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.199.199", "start_pos": 199, "end_pos": 199, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "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": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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": "PFLQKGLRRVVRKYAPELLN", "down_seq": "SDSLKRSEGDEGQADEDEQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr199" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53091-1.202.202", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSSPFPADTPSSNRPSNS", "down_seq": "PPPSSIGAGFGSSSGLDSQI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ], "site_lbl": "Ser19" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53091-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53091-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53091-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53091-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53091-1.37.37", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.202.202", "start_pos": 202, "end_pos": 202, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QKGLRRVVRKYAPELLNTSD", "down_seq": "LKRSEGDEGQADEDEQQDDD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser202" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53091-1.199.199", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.226.226", "start_pos": 226, "end_pos": 226, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Structural mechanism for the selective phosphorylation of DNA-loaded MCM double hexamers by the Dbf4-dependent kinase.", "journal": "Nature structural & molecular biology", "date": "2022-01", "authors": "Greiwe Julia F, Miller Thomas C R, Locke Julia, Martino Fabrizio, Howell Steven, Schreiber Anne, Nans Andrea, Diffley John F X, Costa Alessandro", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SEGDEGQADEDEQQDDDMNG", "down_seq": "SLPRDSGSSAAPGNGTSAMA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ], "site_lbl": "Ser226" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53091-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53091-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53091-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53091-1.235.235", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.227.227", "start_pos": 227, "end_pos": 227, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "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": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "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": "EGDEGQADEDEQQDDDMNGS", "down_seq": "LPRDSGSSAAPGNGTSAMAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" }, { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser227" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53091-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53091-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53091-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53091-1.235.235", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.232.232", "start_pos": 232, "end_pos": 232, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "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": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Structural mechanism for the selective phosphorylation of DNA-loaded MCM double hexamers by the Dbf4-dependent kinase.", "journal": "Nature structural & molecular biology", "date": "2022-01", "authors": "Greiwe Julia F, Miller Thomas C R, Locke Julia, Martino Fabrizio, Howell Steven, Schreiber Anne, Nans Andrea, Diffley John F X, Costa Alessandro", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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": "34963704", "url": "https://glygen.org/publication/PubMed/34963704", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QADEDEQQDDDMNGSSLPRD", "down_seq": "GSSAAPGNGTSAMATRSITT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "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": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ], "site_lbl": "Ser232" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53091-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53091-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53091-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53091-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53091-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53091-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53091-1.252.252", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.234.234", "start_pos": 234, "end_pos": 234, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structural mechanism for the selective phosphorylation of DNA-loaded MCM double hexamers by the Dbf4-dependent kinase.", "journal": "Nature structural & molecular biology", "date": "2022-01", "authors": "Greiwe Julia F, Miller Thomas C R, Locke Julia, Martino Fabrizio, Howell Steven, Schreiber Anne, Nans Andrea, Diffley John F X, Costa Alessandro", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DEDEQQDDDMNGSSLPRDSG", "down_seq": "SAAPGNGTSAMATRSITTST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ], "site_lbl": "Ser234" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53091-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53091-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53091-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53091-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53091-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53091-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53091-1.252.252", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.235.235", "start_pos": 235, "end_pos": 235, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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": "EDEQQDDDMNGSSLPRDSGS", "down_seq": "AAPGNGTSAMATRSITTSTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser235" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53091-1.226.226", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53091-1.227.227", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53091-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53091-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53091-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53091-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53091-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53091-1.255.255", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.249.249", "start_pos": 249, "end_pos": 249, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "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": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] }, { "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": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "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": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "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": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "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": "PRDSGSSAAPGNGTSAMATR", "down_seq": "ITTSTSPEQTERVFQISFFN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "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": "Ser249" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53091-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53091-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53091-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53091-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53091-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53091-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53091-1.259.259", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.251.251", "start_pos": 251, "end_pos": 251, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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": "DSGSSAAPGNGTSAMATRSI", "down_seq": "TSTSPEQTERVFQISFFNLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr251" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53091-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53091-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53091-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53091-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53091-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53091-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53091-1.259.259", "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": "P53091-1.252.252", "start_pos": 252, "end_pos": 252, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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": "SGSSAAPGNGTSAMATRSIT", "down_seq": "STSPEQTERVFQISFFNLPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr252" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53091-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53091-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53091-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53091-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53091-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53091-1.255.255", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53091-1.259.259", "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": "P53091-1.255.255", "start_pos": 255, "end_pos": 255, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SAAPGNGTSAMATRSITTST", "down_seq": "PEQTERVFQISFFNLPTVHR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser255" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53091-1.235.235", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53091-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53091-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53091-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53091-1.259.259", "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": "P53091-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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": "GNGTSAMATRSITTSTSPEQ", "down_seq": "ERVFQISFFNLPTVHRIRDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr259" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53091-1.249.249", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53091-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53091-1.252.252", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53091-1.255.255", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.31.31", "start_pos": 31, "end_pos": 31, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "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": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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": "SSNRPSNSSPPPSSIGAGFG", "down_seq": "SSGLDSQIGSRLHFPSSSQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser31" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53091-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53091-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53091-1.49.49", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.370.370", "start_pos": 370, "end_pos": 370, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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": "RSRFLDWQKVRIQENANEIP", "down_seq": "GSMPRTLDVILRGDSVERAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr370" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53091-1.372.372", "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": "P53091-1.372.372", "start_pos": 372, "end_pos": 372, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "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": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "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": "RFLDWQKVRIQENANEIPTG", "down_seq": "MPRTLDVILRGDSVERAKPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser372" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53091-1.370.370", "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": "P53091-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSSPPPSSIGAGFGSSSGLD", "down_seq": "QIGSRLHFPSSSQPHVSNSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ], "site_lbl": "Ser37" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53091-1.19.19", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53091-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53091-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53091-1.56.56", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MS", "down_seq": "PFPADTPSSNRPSNSSPPPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53091-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53091-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53091-1.19.19", "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": "P53091-1.408.408", "start_pos": 408, "end_pos": 408, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RAKPGDRCKFTGVEIVVPDV", "down_seq": "QLGLPGVKPSSTLDTRGISK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ], "site_lbl": "Thr408" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "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": "P53091-1.435.435", "start_pos": 435, "end_pos": 435, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VKPSSTLDTRGISKTTEGLN", "down_seq": "GVTGLRSLGVRDLTYKISFL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser435" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "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": "P53091-1.470.470", "start_pos": 470, "end_pos": 470, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YKISFLACHVISIGSNIGAS", "down_seq": "PDANSNNRETELQMAANLQA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser470" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "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": "P53091-1.49.49", "start_pos": 49, "end_pos": 49, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FGSSSGLDSQIGSRLHFPSS", "down_seq": "QPHVSNSQTGPFVNDSTQFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ], "site_lbl": "Ser49" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53091-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53091-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53091-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53091-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53091-1.66.66", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "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": "DSQIGSRLHFPSSSQPHVSN", "down_seq": "QTGPFVNDSTQFSSQRLQTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" }, { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser56" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53091-1.37.37", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53091-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53091-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53091-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53091-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53091-1.75.75", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.58.58", "start_pos": 58, "end_pos": 58, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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": "QIGSRLHFPSSSQPHVSNSQ", "down_seq": "GPFVNDSTQFSSQRLQTDGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr58" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53091-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53091-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53091-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53091-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53091-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53091-1.78.78", "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": "P53091-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PSSSQPHVSNSQTGPFVNDS", "down_seq": "QFSSQRLQTDGSATNDMEGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ], "site_lbl": "Thr66" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53091-1.49.49", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53091-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53091-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53091-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53091-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53091-1.78.78", "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": "P53091-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QPHVSNSQTGPFVNDSTQFS", "down_seq": "QRLQTDGSATNDMEGNEPAR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53091-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53091-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53091-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53091-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53091-1.78.78", "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": "P53091-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Structural mechanism for the selective phosphorylation of DNA-loaded MCM double hexamers by the Dbf4-dependent kinase.", "journal": "Nature structural & molecular biology", "date": "2022-01", "authors": "Greiwe Julia F, Miller Thomas C R, Locke Julia, Martino Fabrizio, Howell Steven, Schreiber Anne, Nans Andrea, Diffley John F X, Costa Alessandro", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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" ] }, { "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NSQTGPFVNDSTQFSSQRLQ", "down_seq": "DGSATNDMEGNEPARSFKSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "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": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ], "site_lbl": "Thr75" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53091-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53091-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53091-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53091-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53091-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53091-1.91.91", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.766.766", "start_pos": 766, "end_pos": 766, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "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": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] } ], "crossref": [ { "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "FSAEQLRRYIKYARTFKPIL", "down_seq": "KEARSYLVEKYKELRKDDAQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "site_lbl": "Thr766" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "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": "P53091-1.78.78", "start_pos": 78, "end_pos": 78, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Structural mechanism for the selective phosphorylation of DNA-loaded MCM double hexamers by the Dbf4-dependent kinase.", "journal": "Nature structural & molecular biology", "date": "2022-01", "authors": "Greiwe Julia F, Miller Thomas C R, Locke Julia, Martino Fabrizio, Howell Steven, Schreiber Anne, Nans Andrea, Diffley John F X, Costa Alessandro", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ] } ], "crossref": [ { "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "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" ] }, { "id": "34963704", "url": "https://glygen.org/publication/PubMed/34963704", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TGPFVNDSTQFSSQRLQTDG", "down_seq": "ATNDMEGNEPARSFKSRALN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" }, { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "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": "34963704", "url": "https://glygen.org/publication/PubMed/34963704" } ], "site_lbl": "Ser78" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53091-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53091-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53091-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53091-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53091-1.91.91", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53091-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "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": "QRLQTDGSATNDMEGNEPAR", "down_seq": "FKSRALNHVKKVDDVTGEKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003169", "url": "https://www.yeastgenome.org/locus/S000003169" }, { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser91" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53091-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53091-1.78.78", "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": "P53091-1.9.9", "start_pos": 9, "end_pos": 9, "uniprot_canonical_ac": "P53091-1", "length": 1017, "uniprot_id": "MCM6_YEAST", "protein_name": "DNA replication licensing factor MCM6", "refseq_ac": "NP_011314", "refseq_name": "MCM DNA helicase complex subunit MCM6", "gene_name": "MCM6", "gene_names_uniprotkb": "MCM6", "gene_names_refseq": "MCM6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53091", "url": "https://www.uniprot.org/uniprotkb/P53091" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mec1 is one of multiple kinases that prime the Mcm2-7 helicase for phosphorylation by Cdc7.", "journal": "Molecular cell", "date": "2010-11-12", "authors": "Randell John C W, Fan Andy, Chan Clara, Francis Laura I, Heller Ryan C, Galani Kyriaki, Bell Stephen P", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" } ], "reference": [ { "type": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ] } ], "crossref": [ { "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MSSPFPAD", "down_seq": "PSSNRPSNSSPPPSSIGAGF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53091", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53091" }, { "database": "PubMed", "id": "21070963", "url": "https://glygen.org/publication/PubMed/21070963" } ], "site_lbl": "Thr9" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "328", "end_pos": "328" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "337", "end_pos": "337" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "581", "end_pos": "581" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1017", "end_pos": "1017" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "202", "end_pos": "202" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "227", "end_pos": "227" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "252", "end_pos": "252" }, { "start_pos": "255", "end_pos": "255" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "370", "end_pos": "370" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "408", "end_pos": "408" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "766", "end_pos": "766" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "91", "end_pos": "91" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53091-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53091-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53091-1.19.19", "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": "P53104-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Chemical genetic analysis of Apg1 reveals a non-kinase role in the induction of autophagy.", "journal": "Molecular biology of the cell", "date": "2003-02", "authors": "Abeliovich Hagai, Zhang Chao, Dunn William A, Shokat Kevan M, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "M", "start_aa": "M", "up_seq": "HPHIVGLIDCERTSTDFYLI", "down_seq": "EYCALGDLTFLLKRRKELME", "mutagenesis": [ { "sequence_org": "M", "sequence_mut": "A", "comment": "Enables the binding of the inhibitor of the kinase activity 1-NA-PP1.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.211.211", "start_pos": 211, "end_pos": 211, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Apg1p, a novel protein kinase required for the autophagic process in Saccharomyces cerevisiae.", "journal": "Gene", "date": "1997-06-19", "authors": "Matsuura A, Tsukada M, Wada Y, Ohsumi Y", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "9224897", "url": "https://glygen.org/publication/PubMed/9224897" } ] }, { "title": "Early steps in autophagy depend on direct phosphorylation of Atg9 by the Atg1 kinase.", "journal": "Molecular cell", "date": "2014-02-06", "authors": "Papinski Daniel, Schuschnig Martina, Reiter Wolfgang, Wilhelm Larissa, Barnes Christopher A, Maiolica Alessio, Hansmann Isabella, Pfaffenwimmer Thaddaeus, Kijanska Monika, Stoffel Ingrid, Lee Sung Sik, Brezovich Andrea, Lou Jane Hua, Turk Benjamin E, Aebersold Ruedi, Ammerer Gustav, Peter Matthias, Kraft Claudine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ] }, { "title": "Fine mapping of autophagy-related proteins during autophagosome formation in Saccharomyces cerevisiae.", "journal": "Journal of cell science", "date": "2013", "authors": "Suzuki K, Akioka M, Kondo-Kakuta C, Yamamoto H, Ohsumi Y", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "23549786", "url": "https://glygen.org/publication/PubMed/23549786" } ] }, { "title": "Atg4 proteolytic activity can be inhibited by Atg1 phosphorylation.", "journal": "Nature communications", "date": "2017", "authors": "Sanchez-Wandelmer J, Kriegenburg F, Rohringer S, Schuschnig M, Gomez-Sanchez R, Zens B, Abreu S, Hardenberg R, Hollenstein D, Gao J, Ungermann C, Martens S, Kraft C, Reggiori F", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "28821724", "url": "https://glygen.org/publication/PubMed/28821724" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9224897", "url": "https://glygen.org/publication/PubMed/9224897", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23549786", "url": "https://glygen.org/publication/PubMed/23549786", "database": "PubMed", "categories": [ "Other" ] }, { "id": "28821724", "url": "https://glygen.org/publication/PubMed/28821724", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "KSFHELGFVGIYNLPILKIA", "down_seq": "FGFARFLPNTSLAETLCGSP", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Abolished kinase activity. Loss of cell viability under starvation.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "9224897", "url": "https://glygen.org/publication/PubMed/9224897" }, { "database": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" }, { "database": "PubMed", "id": "23549786", "url": "https://glygen.org/publication/PubMed/23549786" }, { "database": "PubMed", "id": "28821724", "url": "https://glygen.org/publication/PubMed/28821724" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P53104-1.226.226", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53104-1.230.230", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.226.226", "start_pos": 226, "end_pos": 226, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "PP2C phosphatases promote autophagy by dephosphorylation of the Atg1 complex.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2019-01-29", "authors": "Memisoglu Gonen, Eapen Vinay V, Yang Ying, Klionsky Daniel J, Haber James E", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "30655342", "url": "https://glygen.org/publication/PubMed/30655342" } ] }, { "title": "Autophosphorylation within the Atg1 activation loop is required for both kinase activity and the induction of autophagy in Saccharomyces cerevisiae.", "journal": "Genetics", "date": "2010-07", "authors": "Yeh Yuh-Ying, Wrasman Kristie, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20439775", "url": "https://glygen.org/publication/PubMed/20439775" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "An Atg13 protein-mediated self-association of the Atg1 protein kinase is important for the induction of autophagy.", "journal": "The Journal of biological chemistry", "date": "2011-08-19", "authors": "Yeh Yuh-Ying, Shah Khyati H, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21712380", "url": "https://glygen.org/publication/PubMed/21712380" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "30655342", "url": "https://glygen.org/publication/PubMed/30655342", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20439775", "url": "https://glygen.org/publication/PubMed/20439775", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21712380", "url": "https://glygen.org/publication/PubMed/21712380", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ILKIADFGFARFLPNTSLAE", "down_seq": "LCGSPLYMAPEILNYQKYNA", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "Abolishes autophosphorylation.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "30655342", "url": "https://glygen.org/publication/PubMed/30655342" } ] }, { "sequence_org": "T", "sequence_mut": "E", "comment": "Leads to constitutive autophosphorylation activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "20439775", "url": "https://glygen.org/publication/PubMed/20439775" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P53104-1", "kinase_gene_name": "ATG1", "residue": "Thr", "comment": "", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20439775", "url": "https://glygen.org/publication/PubMed/20439775" } ], "site_lbl": "Thr226" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine; by autocatalysis", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20439775", "url": "https://glygen.org/publication/PubMed/20439775" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "PubMed", "id": "21712380", "url": "https://glygen.org/publication/PubMed/21712380" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Thr226" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53104-1.211.211", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53104-1.230.230", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53104-1.237.237", "categories": [ "mutagenesis_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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Apg1p, a novel protein kinase required for the autophagic process in Saccharomyces cerevisiae.", "journal": "Gene", "date": "1997-06-19", "authors": "Matsuura A, Tsukada M, Wada Y, Ohsumi Y", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "9224897", "url": "https://glygen.org/publication/PubMed/9224897" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9224897", "url": "https://glygen.org/publication/PubMed/9224897", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "FLPNTSLAETLCGSPLYMAP", "down_seq": "ILNYQKYNAKADLWSVGTVV", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "R", "comment": "Loss of cell viability under starvation.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "9224897", "url": "https://glygen.org/publication/PubMed/9224897" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53104-1.226.226", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53104-1.230.230", "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": "P53104-1.34.34", "start_pos": 34, "end_pos": 34, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NHNLMASAGNYTAEKEIGKG", "down_seq": "FATVYRGHLTSDKSQHVAIK", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "D", "comment": "Impairs kinase activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "sequence_org": "S", "sequence_mut": "E", "comment": "Impairs kinase activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "site_lbl": "Ser34" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53104-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53104-1.54.54", "categories": [ "mutagenesis_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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.429.429", "start_pos": 429, "end_pos": 429, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The autophagy-related protein kinase Atg1 interacts with the ubiquitin-like protein Atg8 via the Atg8 family interacting motif to facilitate autophagosome formation.", "journal": "The Journal of biological chemistry", "date": "2012-08-17", "authors": "Nakatogawa Hitoshi, Ohbayashi Shiran, Sakoh-Nakatogawa Machiko, Kakuta Soichiro, Suzuki Sho W, Kirisako Hiromi, Kondo-Kakuta Chika, Noda Nobuo N, Yamamoto Hayashi, Ohsumi Yoshinori", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "22778255", "url": "https://glygen.org/publication/PubMed/22778255" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22778255", "url": "https://glygen.org/publication/PubMed/22778255", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "KASNNKYHNSLVSDRSFERE", "down_seq": "VVVEKKSVEVNSLADEVAQA", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "Impairs interaction with ATG8 and decreases autophagy efficiency; when associated with A-432.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "22778255", "url": "https://glygen.org/publication/PubMed/22778255" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53104-1.418.418", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53104-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53104-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53104-1.432.432", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53104-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53104-1.441.441", "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": "P53104-1.432.432", "start_pos": 432, "end_pos": 432, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The autophagy-related protein kinase Atg1 interacts with the ubiquitin-like protein Atg8 via the Atg8 family interacting motif to facilitate autophagosome formation.", "journal": "The Journal of biological chemistry", "date": "2012-08-17", "authors": "Nakatogawa Hitoshi, Ohbayashi Shiran, Sakoh-Nakatogawa Machiko, Kakuta Soichiro, Suzuki Sho W, Kirisako Hiromi, Kondo-Kakuta Chika, Noda Nobuo N, Yamamoto Hayashi, Ohsumi Yoshinori", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "22778255", "url": "https://glygen.org/publication/PubMed/22778255" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "22778255", "url": "https://glygen.org/publication/PubMed/22778255", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "NNKYHNSLVSDRSFEREYVV", "down_seq": "EKKSVEVNSLADEVAQAGFN", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "A", "comment": "Impairs interaction with ATG8 and decreases autophagy efficiency; when associated with A-429.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "22778255", "url": "https://glygen.org/publication/PubMed/22778255" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53104-1.418.418", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53104-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53104-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53104-1.429.429", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53104-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53104-1.441.441", "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": "P53104-1.508.508", "start_pos": 508, "end_pos": 508, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Protein kinase A and Sch9 cooperatively regulate induction of autophagy in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2007-10", "authors": "Yorimitsu Tomohiro, Zaman Shadia, Broach James R, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "17699586", "url": "https://glygen.org/publication/PubMed/17699586" } ] }, { "title": "An evolutionary proteomics approach identifies substrates of the cAMP-dependent protein kinase.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2005-09-27", "authors": "Budovskaya Yelena V, Stephan Joseph S, Deminoff Stephen J, Herman Paul K", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "16172400", "url": "https://glygen.org/publication/PubMed/16172400" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17699586", "url": "https://glygen.org/publication/PubMed/17699586", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16172400", "url": "https://glygen.org/publication/PubMed/16172400", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PRLLRATSSSSGGSDGSRRP", "down_seq": "LVDRRLSISSLNPSNALSRA", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Impairs autophagic activity; when associated with A-515.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "17699586", "url": "https://glygen.org/publication/PubMed/17699586" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by PKA", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "16172400", "url": "https://glygen.org/publication/PubMed/16172400" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "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": "17699586", "url": "https://glygen.org/publication/PubMed/17699586" } ], "site_lbl": "Ser508" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53104-1.498.498", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53104-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53104-1.515.515", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53104-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53104-1.518.518", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.515.515", "start_pos": 515, "end_pos": 515, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Protein kinase A and Sch9 cooperatively regulate induction of autophagy in Saccharomyces cerevisiae.", "journal": "Molecular biology of the cell", "date": "2007-10", "authors": "Yorimitsu Tomohiro, Zaman Shadia, Broach James R, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "17699586", "url": "https://glygen.org/publication/PubMed/17699586" } ] }, { "title": "An evolutionary proteomics approach identifies substrates of the cAMP-dependent protein kinase.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2005-09-27", "authors": "Budovskaya Yelena V, Stephan Joseph S, Deminoff Stephen J, Herman Paul K", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "16172400", "url": "https://glygen.org/publication/PubMed/16172400" } ] }, { "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17699586", "url": "https://glygen.org/publication/PubMed/17699586", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16172400", "url": "https://glygen.org/publication/PubMed/16172400", "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": "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": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "SSSSGGSDGSRRPSLVDRRL", "down_seq": "ISSLNPSNALSRALGIASTR", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Impairs autophagic activity; when associated with A-508.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "17699586", "url": "https://glygen.org/publication/PubMed/17699586" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by PKA", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "16172400", "url": "https://glygen.org/publication/PubMed/16172400" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "17699586", "url": "https://glygen.org/publication/PubMed/17699586" } ], "site_lbl": "Ser515" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53104-1.498.498", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53104-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53104-1.508.508", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53104-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53104-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53104-1.533.533", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.54.54", "start_pos": 54, "end_pos": 54, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Tor-mediated induction of autophagy via an Apg1 protein kinase complex.", "journal": "The Journal of cell biology", "date": "2000-09-18", "authors": "Kamada Y, Funakoshi T, Shintani T, Nagano K, Ohsumi M, Ohsumi Y", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "10995454", "url": "https://glygen.org/publication/PubMed/10995454" } ] }, { "title": "Fine mapping of autophagy-related proteins during autophagosome formation in Saccharomyces cerevisiae.", "journal": "Journal of cell science", "date": "2013", "authors": "Suzuki K, Akioka M, Kondo-Kakuta C, Yamamoto H, Ohsumi Y", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "23549786", "url": "https://glygen.org/publication/PubMed/23549786" } ] }, { "title": "Chemical genetic analysis of Apg1 reveals a non-kinase role in the induction of autophagy.", "journal": "Molecular biology of the cell", "date": "2003-02", "authors": "Abeliovich Hagai, Zhang Chao, Dunn William A, Shokat Kevan M, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10995454", "url": "https://glygen.org/publication/PubMed/10995454", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23549786", "url": "https://glygen.org/publication/PubMed/23549786", "database": "PubMed", "categories": [ "Other" ] }, { "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "SFATVYRGHLTSDKSQHVAI", "down_seq": "EVSRAKLKNKKLLENLEIEI", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "Defect in the Cvt pathway.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "10995454", "url": "https://glygen.org/publication/PubMed/10995454" }, { "database": "PubMed", "id": "23549786", "url": "https://glygen.org/publication/PubMed/23549786" }, { "database": "PubMed", "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53104-1.34.34", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.551.551", "start_pos": 551, "end_pos": 551, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IASTRLFGGANQQQQQQQIT", "down_seq": "SPPYSQTLLNSQLFHELTEN", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Decreases autophagic activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "site_lbl": "Ser551" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53104-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53104-1.552.552", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.552.552", "start_pos": 552, "end_pos": 552, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASTRLFGGANQQQQQQQITS", "down_seq": "PPYSQTLLNSQLFHELTENI", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Decreases autophagic activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ], "site_lbl": "Ser552" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53104-1.533.533", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53104-1.551.551", "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": "P53104-1.621.621", "start_pos": 621, "end_pos": 621, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "AKAFVVYSYAEVKFSQIVPL", "down_seq": "TTLKGMANFENRRSMDSNAI", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Decreases autophagic activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser621" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53104-1.622.622", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53104-1.623.623", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53104-1.635.635", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53104-1.638.638", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.677.677", "start_pos": 677, "end_pos": 677, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "LKKYKEDCLSTKTFGKGRTL", "down_seq": "ATSQLSATFNKLPRSEMILL", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Decreases autophagic activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "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": "Ser677" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53104-1.666.666", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53104-1.667.667", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53104-1.679.679", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53104-1.680.680", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53104-1.683.683", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53104-1.685.685", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.680.680", "start_pos": 680, "end_pos": 680, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "YKEDCLSTKTFGKGRTLSAT", "down_seq": "QLSATFNKLPRSEMILLCNE", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Decreases autophagic activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "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": "Ser680" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53104-1.666.666", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53104-1.667.667", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53104-1.677.677", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53104-1.679.679", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53104-1.683.683", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53104-1.685.685", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.683.683", "start_pos": 683, "end_pos": 683, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "DCLSTKTFGKGRTLSATSQL", "down_seq": "ATFNKLPRSEMILLCNEAIV", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Decreases autophagic activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "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": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "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": "Ser683" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53104-1.666.666", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53104-1.667.667", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53104-1.677.677", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53104-1.679.679", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53104-1.680.680", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53104-1.685.685", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.769.769", "start_pos": 769, "end_pos": 769, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "CLEKADFLRLKINDLRFKHA", "down_seq": "EVAENQTLEEKGSSEEPVYL", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Decreases autophagic activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser769" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P53104-1.776.776", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53104-1.782.782", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53104-1.783.783", "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": "P53104-1.783.783", "start_pos": 783, "end_pos": 783, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "LRFKHASEVAENQTLEEKGS", "down_seq": "EEPVYLEKLLYDRALEISKM", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Decreases autophagic activity.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser783" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53104-1.769.769", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53104-1.776.776", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53104-1.782.782", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.884.884", "start_pos": 884, "end_pos": 884, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Chemical genetic analysis of Apg1 reveals a non-kinase role in the induction of autophagy.", "journal": "Molecular biology of the cell", "date": "2003-02", "authors": "Abeliovich Hagai, Zhang Chao, Dunn William A, Shokat Kevan M, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "HSVLDENDRIIIRKYIDSIA", "down_seq": "RLKILRQKMNHQN", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53104-1.865.865", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53104-1.886.886", "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": "P53104-1.886.886", "start_pos": 886, "end_pos": 886, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Chemical genetic analysis of Apg1 reveals a non-kinase role in the induction of autophagy.", "journal": "Molecular biology of the cell", "date": "2003-02", "authors": "Abeliovich Hagai, Zhang Chao, Dunn William A, Shokat Kevan M, Klionsky Daniel J", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "reference": [ { "type": "PubMed", "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "L", "start_aa": "L", "up_seq": "VLDENDRIIIRKYIDSIANR", "down_seq": "KILRQKMNHQN", "mutagenesis": [ { "sequence_org": "L", "sequence_mut": "G", "comment": "Cvt pathway specific block.", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "12589048", "url": "https://glygen.org/publication/PubMed/12589048" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53104-1.884.884", "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": "P53104-1.129.129", "start_pos": 129, "end_pos": 129, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DLTFLLKRRKELMENHPLLR", "down_seq": "VFEKYPPPSENHNGLHRAFV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "site_lbl": "Thr129" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.181.181", "start_pos": 181, "end_pos": 181, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KFLRSKNLVHRDIKPQNLLL", "down_seq": "TPLIGYHDSKSFHELGFVGI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser181" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "", "down_seq": "AGNYTAEKEIGKGSFATVYR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser20" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P53104-1.34.34", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.230.230", "start_pos": 230, "end_pos": 230, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ADFGFARFLPNTSLAETLCG", "down_seq": "PLYMAPEILNYQKYNAKADL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser230" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53104-1.211.211", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53104-1.226.226", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53104-1.237.237", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.304.304", "start_pos": 304, "end_pos": 304, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DVITFPSYCNIEPELKELIC", "down_seq": "LLTFDPAQRIGFEEFFANKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "site_lbl": "Ser304" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.330.330", "start_pos": 330, "end_pos": 330, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PAQRIGFEEFFANKVVNEDL", "down_seq": "SYELEDDLPELESKSKGIVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser330" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "upstream", "id": "P53104-1.345.345", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.345.345", "start_pos": 345, "end_pos": 345, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "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": "VNEDLSSYELEDDLPELESK", "down_seq": "KGIVESNMFVSEYLSKQPKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser345" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53104-1.330.330", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53104-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53104-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53104-1.365.365", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.351.351", "start_pos": 351, "end_pos": 351, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SYELEDDLPELESKSKGIVE", "down_seq": "NMFVSEYLSKQPKSPNSNLA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser351" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53104-1.345.345", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53104-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53104-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53104-1.368.368", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.356.356", "start_pos": 356, "end_pos": 356, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Early steps in autophagy depend on direct phosphorylation of Atg9 by the Atg1 kinase.", "journal": "Molecular cell", "date": "2014-02-06", "authors": "Papinski Daniel, Schuschnig Martina, Reiter Wolfgang, Wilhelm Larissa, Barnes Christopher A, Maiolica Alessio, Hansmann Isabella, Pfaffenwimmer Thaddaeus, Kijanska Monika, Stoffel Ingrid, Lee Sung Sik, Brezovich Andrea, Lou Jane Hua, Turk Benjamin E, Aebersold Ruedi, Ammerer Gustav, Peter Matthias, Kraft Claudine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DDLPELESKSKGIVESNMFV", "down_seq": "EYLSKQPKSPNSNLAGHQSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P53104-1", "kinase_gene_name": "ATG1", "residue": "Ser", "comment": "", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ], "site_lbl": "Ser356" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by autocatalysis", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser356" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53104-1.345.345", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53104-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53104-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53104-1.368.368", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53104-1.375.375", "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": 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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.365.365", "start_pos": 365, "end_pos": 365, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "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": "SKGIVESNMFVSEYLSKQPK", "down_seq": "PNSNLAGHQSMADNPAELSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "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": "Ser365" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53104-1.345.345", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53104-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53104-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53104-1.368.368", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53104-1.375.375", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53104-1.384.384", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.368.368", "start_pos": 368, "end_pos": 368, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IVESNMFVSEYLSKQPKSPN", "down_seq": "NLAGHQSMADNPAELSDALK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser368" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53104-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53104-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53104-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53104-1.375.375", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53104-1.384.384", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.375.375", "start_pos": 375, "end_pos": 375, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "VSEYLSKQPKSPNSNLAGHQ", "down_seq": "MADNPAELSDALKNSNILTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser375" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53104-1.356.356", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53104-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53104-1.368.368", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53104-1.384.384", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53104-1.390.390", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.384.384", "start_pos": 384, "end_pos": 384, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "KSPNSNLAGHQSMADNPAEL", "down_seq": "DALKNSNILTAPAVKTDHTQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser384" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53104-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53104-1.368.368", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53104-1.375.375", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53104-1.390.390", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.390.390", "start_pos": 390, "end_pos": 390, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] }, { "title": "Early steps in autophagy depend on direct phosphorylation of Atg9 by the Atg1 kinase.", "journal": "Molecular cell", "date": "2014-02-06", "authors": "Papinski Daniel, Schuschnig Martina, Reiter Wolfgang, Wilhelm Larissa, Barnes Christopher A, Maiolica Alessio, Hansmann Isabella, Pfaffenwimmer Thaddaeus, Kijanska Monika, Stoffel Ingrid, Lee Sung Sik, Brezovich Andrea, Lou Jane Hua, Turk Benjamin E, Aebersold Ruedi, Ammerer Gustav, Peter Matthias, Kraft Claudine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "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": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "24440502", "url": "https://glygen.org/publication/PubMed/24440502", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LAGHQSMADNPAELSDALKN", "down_seq": "NILTAPAVKTDHTQAVDKKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P53104-1", "kinase_gene_name": "ATG1", "residue": "Ser", "comment": "", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser390" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by autocatalysis", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "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" }, { "database": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ], "site_lbl": "Ser390" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53104-1.375.375", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53104-1.384.384", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.418.418", "start_pos": 418, "end_pos": 418, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "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": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "VKTDHTQAVDKKASNNKYHN", "down_seq": "LVSDRSFEREYVVVEKKSVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "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": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser418" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53104-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53104-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53104-1.429.429", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53104-1.432.432", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53104-1.436.436", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.421.421", "start_pos": 421, "end_pos": 421, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DHTQAVDKKASNNKYHNSLV", "down_seq": "DRSFEREYVVVEKKSVEVNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser421" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53104-1.418.418", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53104-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53104-1.429.429", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53104-1.432.432", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53104-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53104-1.441.441", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.424.424", "start_pos": 424, "end_pos": 424, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "QAVDKKASNNKYHNSLVSDR", "down_seq": "FEREYVVVEKKSVEVNSLAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser424" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53104-1.418.418", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53104-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53104-1.429.429", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53104-1.432.432", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53104-1.436.436", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53104-1.441.441", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.436.436", "start_pos": 436, "end_pos": 436, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HNSLVSDRSFEREYVVVEKK", "down_seq": "VEVNSLADEVAQAGFNPNPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser436" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53104-1.418.418", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53104-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53104-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53104-1.429.429", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53104-1.432.432", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53104-1.441.441", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.441.441", "start_pos": 441, "end_pos": 441, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDRSFEREYVVVEKKSVEVN", "down_seq": "LADEVAQAGFNPNPIKHPTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser441" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53104-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53104-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53104-1.429.429", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53104-1.432.432", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53104-1.436.436", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.474.474", "start_pos": 474, "end_pos": 474, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "NPIKHPTSTQNQNVLLNEQF", "down_seq": "PNNQQYFQNQGENPRLLRAT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser474" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.498.498", "start_pos": 498, "end_pos": 498, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQYFQNQGENPRLLRATSSS", "down_seq": "GGSDGSRRPSLVDRRLSISS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser498" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P53104-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53104-1.508.508", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53104-1.515.515", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53104-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53104-1.518.518", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.504.504", "start_pos": 504, "end_pos": 504, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "QGENPRLLRATSSSSGGSDG", "down_seq": "RRPSLVDRRLSISSLNPSNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser504" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53104-1.498.498", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53104-1.508.508", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53104-1.515.515", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53104-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53104-1.518.518", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.517.517", "start_pos": 517, "end_pos": 517, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Early steps in autophagy depend on direct phosphorylation of Atg9 by the Atg1 kinase.", "journal": "Molecular cell", "date": "2014-02-06", "authors": "Papinski Daniel, Schuschnig Martina, Reiter Wolfgang, Wilhelm Larissa, Barnes Christopher A, Maiolica Alessio, Hansmann Isabella, Pfaffenwimmer Thaddaeus, Kijanska Monika, Stoffel Ingrid, Lee Sung Sik, Brezovich Andrea, Lou Jane Hua, Turk Benjamin E, Aebersold Ruedi, Ammerer Gustav, Peter Matthias, Kraft Claudine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ] }, { "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502", "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": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSGGSDGSRRPSLVDRRLSI", "down_seq": "SLNPSNALSRALGIASTRLF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P53104-1", "kinase_gene_name": "ATG1", "residue": "Ser", "comment": "", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" } ], "site_lbl": "Ser517" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by autocatalysis", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "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": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "24440502", "url": "https://glygen.org/publication/PubMed/24440502" }, { "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": "Ser517" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53104-1.498.498", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53104-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53104-1.508.508", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53104-1.515.515", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53104-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53104-1.533.533", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.518.518", "start_pos": 518, "end_pos": 518, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "SGGSDGSRRPSLVDRRLSIS", "down_seq": "LNPSNALSRALGIASTRLFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "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": "Ser518" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53104-1.498.498", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53104-1.504.504", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53104-1.508.508", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53104-1.515.515", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53104-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53104-1.533.533", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.533.533", "start_pos": 533, "end_pos": 533, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RLSISSLNPSNALSRALGIA", "down_seq": "TRLFGGANQQQQQQQITSSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser533" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53104-1.515.515", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53104-1.517.517", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53104-1.518.518", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53104-1.551.551", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53104-1.552.552", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.590.590", "start_pos": 590, "end_pos": 590, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The identification and analysis of phosphorylation sites on the Atg1 protein kinase.", "journal": "Autophagy", "date": "2011-07", "authors": "Yeh Yuh-Ying, Shah Khyati H, Chou Chi-Chi, Hsiao He-Hsuan, Wrasman Kristie M, Stephan Joseph S, Stamatakos Demetra, Khoo Kay-Hooi, Herman Paul K", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" } ] }, { "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ENIILRIDHLQHPETLKLDN", "down_seq": "NIVSILESLAAKAFVVYSYA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "21460632", "url": "https://glygen.org/publication/PubMed/21460632" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Thr590" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P53104-1.594.594", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53104-1.598.598", "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": "P53104-1.594.594", "start_pos": 594, "end_pos": 594, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LRIDHLQHPETLKLDNTNIV", "down_seq": "ILESLAAKAFVVYSYAEVKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser594" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53104-1.590.590", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53104-1.598.598", "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": "P53104-1.598.598", "start_pos": 598, "end_pos": 598, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HLQHPETLKLDNTNIVSILE", "down_seq": "LAAKAFVVYSYAEVKFSQIV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser598" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53104-1.590.590", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53104-1.594.594", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.622.622", "start_pos": 622, "end_pos": 622, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "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": "KAFVVYSYAEVKFSQIVPLS", "down_seq": "TLKGMANFENRRSMDSNAIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr622" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53104-1.621.621", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53104-1.623.623", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53104-1.635.635", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53104-1.638.638", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.623.623", "start_pos": 623, "end_pos": 623, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "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": "AFVVYSYAEVKFSQIVPLST", "down_seq": "LKGMANFENRRSMDSNAIAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr623" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53104-1.621.621", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53104-1.622.622", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53104-1.635.635", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53104-1.638.638", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.635.635", "start_pos": 635, "end_pos": 635, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "SQIVPLSTTLKGMANFENRR", "down_seq": "MDSNAIAEEQDSDDAEEEDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser635" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53104-1.621.621", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53104-1.622.622", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53104-1.623.623", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53104-1.638.638", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53104-1.647.647", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.638.638", "start_pos": 638, "end_pos": 638, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "VPLSTTLKGMANFENRRSMD", "down_seq": "NAIAEEQDSDDAEEEDETLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser638" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53104-1.621.621", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53104-1.622.622", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53104-1.623.623", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53104-1.635.635", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53104-1.647.647", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53104-1.656.656", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.647.647", "start_pos": 647, "end_pos": 647, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MANFENRRSMDSNAIAEEQD", "down_seq": "DDAEEEDETLKKYKEDCLST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "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": "Ser647" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53104-1.635.635", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53104-1.638.638", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53104-1.656.656", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53104-1.666.666", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53104-1.667.667", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.656.656", "start_pos": 656, "end_pos": 656, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "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": "MDSNAIAEEQDSDDAEEEDE", "down_seq": "LKKYKEDCLSTKTFGKGRTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr656" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53104-1.638.638", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53104-1.647.647", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53104-1.666.666", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53104-1.667.667", "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": "P53104-1.666.666", "start_pos": 666, "end_pos": 666, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "DSDDAEEEDETLKKYKEDCL", "down_seq": "TKTFGKGRTLSATSQLSATF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "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": "Ser666" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53104-1.647.647", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53104-1.656.656", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53104-1.667.667", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53104-1.677.677", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53104-1.679.679", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53104-1.680.680", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53104-1.683.683", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53104-1.685.685", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P53104-1.667.667", "start_pos": 667, "end_pos": 667, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SDDAEEEDETLKKYKEDCLS", "down_seq": "KTFGKGRTLSATSQLSATFN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ], "site_lbl": "Thr667" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53104-1.647.647", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53104-1.656.656", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53104-1.666.666", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53104-1.677.677", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53104-1.679.679", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53104-1.680.680", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53104-1.683.683", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53104-1.685.685", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.679.679", "start_pos": 679, "end_pos": 679, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "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": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "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": "KYKEDCLSTKTFGKGRTLSA", "down_seq": "SQLSATFNKLPRSEMILLCN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "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": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr679" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53104-1.666.666", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53104-1.667.667", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53104-1.677.677", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53104-1.680.680", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53104-1.683.683", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53104-1.685.685", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P53104-1.685.685", "start_pos": 685, "end_pos": 685, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "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": "LSTKTFGKGRTLSATSQLSA", "down_seq": "FNKLPRSEMILLCNEAIVLY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" }, { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr685" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53104-1.666.666", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53104-1.667.667", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53104-1.677.677", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53104-1.679.679", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53104-1.680.680", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53104-1.683.683", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.726.726", "start_pos": 726, "end_pos": 726, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MKALSILSKSMQVTSNWWYE", "down_seq": "QEKSCSLRVNVLVQWLREKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser726" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.776.776", "start_pos": 776, "end_pos": 776, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Activation of Atg1 kinase in autophagy by regulated phosphorylation.", "journal": "Autophagy", "date": "2010-11", "authors": "Kijanska Monika, Dohnal Ilse, Reiter Wolfgang, Kaspar Susanne, Stoffel Ingrid, Ammerer Gustav, Kraft Claudine, Peter Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LRLKINDLRFKHASEVAENQ", "down_seq": "LEEKGSSEEPVYLEKLLYDR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20953146", "url": "https://glygen.org/publication/PubMed/20953146" } ], "site_lbl": "Thr776" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53104-1.769.769", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53104-1.782.782", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53104-1.783.783", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.782.782", "start_pos": 782, "end_pos": 782, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DLRFKHASEVAENQTLEEKG", "down_seq": "SEEPVYLEKLLYDRALEISK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser782" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53104-1.769.769", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53104-1.776.776", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53104-1.783.783", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53104-1.865.865", "start_pos": 865, "end_pos": 865, "uniprot_canonical_ac": "P53104-1", "length": 897, "uniprot_id": "ATG1_YEAST", "protein_name": "Serine/threonine-protein kinase ATG1", "refseq_ac": "NP_011335", "refseq_name": "serine/threonine protein kinase ATG1", "gene_name": "ATG1", "gene_names_uniprotkb": "ATG1; APG1; AUT3; CVT10; G1615", "gene_names_refseq": "APG1; ATG1; AUT3; CVT10", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53104", "url": "https://www.uniprot.org/uniprotkb/P53104" } ], "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": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PFKTNIHLKSNDVEDKEKYH", "down_seq": "VLDENDRIIIRKYIDSIANR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53104", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53104" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003148", "url": "https://www.yeastgenome.org/locus/S000003148" } ], "site_lbl": "Ser865" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "211", "end_pos": "211" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "429", "end_pos": "429" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "884", "end_pos": "884" }, { "start_pos": "886", "end_pos": "886" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "181", "end_pos": "181" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "345", "end_pos": "345" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "356", "end_pos": "356" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "375", "end_pos": "375" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "418", "end_pos": "418" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "436", "end_pos": "436" }, { "start_pos": "441", "end_pos": "441" }, { "start_pos": "474", "end_pos": "474" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "504", "end_pos": "504" }, { "start_pos": "508", "end_pos": "508" }, { "start_pos": "515", "end_pos": "515" }, { "start_pos": "517", "end_pos": "517" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "533", "end_pos": "533" }, { "start_pos": "551", "end_pos": "551" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "622", "end_pos": "622" }, { "start_pos": "623", "end_pos": "623" }, { "start_pos": "635", "end_pos": "635" }, { "start_pos": "638", "end_pos": "638" }, { "start_pos": "647", "end_pos": "647" }, { "start_pos": "656", "end_pos": "656" }, { "start_pos": "666", "end_pos": "666" }, { "start_pos": "667", "end_pos": "667" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "680", "end_pos": "680" }, { "start_pos": "683", "end_pos": "683" }, { "start_pos": "685", "end_pos": "685" }, { "start_pos": "726", "end_pos": "726" }, { "start_pos": "769", "end_pos": "769" }, { "start_pos": "776", "end_pos": "776" }, { "start_pos": "782", "end_pos": "782" }, { "start_pos": "783", "end_pos": "783" }, { "start_pos": "865", "end_pos": "865" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P53104-1.884.884", "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": "P53114-1.1014.1014", "start_pos": 1014, "end_pos": 1014, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AKKSKGDVDIKGEDLHEKND", "down_seq": "AEVRQETQPKAEATQDDDFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1014" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.1042.1042", "start_pos": 1042, "end_pos": 1042, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "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": "QPKAEATQDDDFDMLFGEND", "down_seq": "STQAYEEEEENEDNDGNNRT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1042" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.1073.1073", "start_pos": 1073, "end_pos": 1073, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "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": "NEDNDGNNRTNNVPMIKAEE", "down_seq": "PSKTNKISILKRHSFAVLLH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1073" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.230.230", "start_pos": 230, "end_pos": 230, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GSFTLLNQLSQTNKLLFKRV", "down_seq": "QTFEAKLHFKDTKPFLNKDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser230" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.251.251", "start_pos": 251, "end_pos": 251, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "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": "QTFEAKLHFKDTKPFLNKDS", "down_seq": "NEFVGSPSLTSPQYIPSPLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr251" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P53114-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53114-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53114-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53114-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53114-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.257.257", "start_pos": 257, "end_pos": 257, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LHFKDTKPFLNKDSTNEFVG", "down_seq": "PSLTSPQYIPSPLSSTKPPG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser257" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53114-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53114-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53114-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53114-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53114-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "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": "FKDTKPFLNKDSTNEFVGSP", "down_seq": "LTSPQYIPSPLSSTKPPGSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser259" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53114-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53114-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53114-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53114-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53114-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.262.262", "start_pos": 262, "end_pos": 262, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "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": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "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": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "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": "TKPFLNKDSTNEFVGSPSLT", "down_seq": "PQYIPSPLSSTKPPGSVNSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "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": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser262" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53114-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53114-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53114-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53114-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53114-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.265.265", "start_pos": 265, "end_pos": 265, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "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": "FLNKDSTNEFVGSPSLTSPQ", "down_seq": "IPSPLSSTKPPGSVNSAAKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Tyr265" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53114-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53114-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53114-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53114-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53114-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.268.268", "start_pos": 268, "end_pos": 268, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KDSTNEFVGSPSLTSPQYIP", "down_seq": "PLSSTKPPGSVNSAAKYKDM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "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": "Ser268" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53114-1.251.251", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53114-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53114-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53114-1.262.262", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53114-1.265.265", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.605.605", "start_pos": 605, "end_pos": 605, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AALMKTLIKFVDLSRNGRNG", "down_seq": "NGNDESSEYETINISLSFSW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser605" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.64.64", "start_pos": 64, "end_pos": 64, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "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": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "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": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "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": "EDTTTTANINEVKKASDLVD", "down_seq": "PSNNTAATADTTHLHEALDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr64" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53114-1.830.830", "start_pos": 830, "end_pos": 830, "uniprot_canonical_ac": "P53114-1", "length": 1132, "uniprot_id": "MED5_YEAST", "protein_name": "Mediator of RNA polymerase II transcription subunit 5", "refseq_ac": "NP_011364", "refseq_name": "Nut1p", "gene_name": "NUT1", "gene_names_uniprotkb": "NUT1; G1876; MED5", "gene_names_refseq": "MED5; NUT1; SSX4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53114", "url": "https://www.uniprot.org/uniprotkb/P53114" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AVLRLNAIPLLKVLRKFRVQ", "down_seq": "QSNYGIYSSDAQGDPNLEPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003119", "url": "https://www.yeastgenome.org/locus/S000003119" }, { "database": "iPTMnet", "id": "P53114", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53114" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser830" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1014", "end_pos": "1014" }, { "start_pos": "1042", "end_pos": "1042" }, { "start_pos": "1073", "end_pos": "1073" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "64", "end_pos": "64" }, { "start_pos": "830", "end_pos": "830" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53146-1.183.183", "start_pos": 183, "end_pos": 183, "uniprot_canonical_ac": "P53146-1", "length": 245, "uniprot_id": "USE1_YEAST", "protein_name": "Protein transport protein USE1", "refseq_ac": "NP_011417", "refseq_name": "SNAP receptor USE1", "gene_name": "USE1", "gene_names_uniprotkb": "USE1; SLT1", "gene_names_refseq": "SLT1; USE1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53146", "url": "https://www.uniprot.org/uniprotkb/P53146" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Use1p is a yeast SNARE protein required for retrograde traffic to the ER.", "journal": "The EMBO journal", "date": "2003-07-15", "authors": "Dilcher Meik, Veith Beate, Chidambaram Subbulakshmi, Hartmann Enno, Schmitt Hans Dieter, Fischer von Mollard Gabriele", "evidence": [ { "database": "UniProtKB", "id": "P53146", "url": "https://www.uniprot.org/uniprotkb/P53146" } ], "reference": [ { "type": "PubMed", "id": "12853481", "url": "https://glygen.org/publication/PubMed/12853481" } ] } ], "crossref": [ { "id": "P53146", "url": "https://www.uniprot.org/uniprotkb/P53146", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12853481", "url": "https://glygen.org/publication/PubMed/12853481", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "SKLVGSLKQGAVAFQSALDE", "down_seq": "KQVLGAAEIGIQVASQGLMD", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "G", "comment": "In USE1-0; slows down protein transport from the endoplasmic reticulum to the Golgi at 37 degrees Celsius.", "evidence": [ { "database": "UniProtKB", "id": "P53146", "url": "https://www.uniprot.org/uniprotkb/P53146" }, { "database": "PubMed", "id": "12853481", "url": "https://glygen.org/publication/PubMed/12853481" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" } ] } ], "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": "P53146-1.143.143", "start_pos": 143, "end_pos": 143, "uniprot_canonical_ac": "P53146-1", "length": 245, "uniprot_id": "USE1_YEAST", "protein_name": "Protein transport protein USE1", "refseq_ac": "NP_011417", "refseq_name": "SNAP receptor USE1", "gene_name": "USE1", "gene_names_uniprotkb": "USE1; SLT1", "gene_names_refseq": "SLT1; USE1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53146", "url": "https://www.uniprot.org/uniprotkb/P53146" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53146", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53146" } ], "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": "P53146", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53146" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "S000003066", "url": "https://www.yeastgenome.org/locus/S000003066", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53146", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53146", "database": "iPTMnet", "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": "LRKRLLGKGQNKGLGYETTK", "down_seq": "VDRQIEDQDTLQQDLIQDMS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003066", "url": "https://www.yeastgenome.org/locus/S000003066" }, { "database": "iPTMnet", "id": "P53146", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53146" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Ser143" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "183", "end_pos": "183" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53168-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "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": "P53168", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53168" }, { "database": "O-GlcNAc Atlas", "id": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168" } ], "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": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PQIFNEMRSNLNNTTNKFPK", "down_seq": "TGGGASDNISANSNSIRSFN", "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": "Ser37", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53168", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53168" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53168-1.38.38", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53168-1.43.43", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53168-1.47.47", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53168-1.50.50", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53168-1.52.52", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53168-1.55.55", "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": "P53168-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "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": "P53168", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53168" }, { "database": "O-GlcNAc Atlas", "id": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168" } ], "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": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "QIFNEMRSNLNNTTNKFPKS", "down_seq": "GGGASDNISANSNSIRSFNS", "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": "Thr38", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53168", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53168" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53168-1.37.37", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53168-1.43.43", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53168-1.47.47", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53168-1.50.50", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53168-1.52.52", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53168-1.55.55", "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": "P53168-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "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": "P53168", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53168" }, { "database": "O-GlcNAc Atlas", "id": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" } ], "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": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MRSNLNNTTNKFPKSTGGGA", "down_seq": "DNISANSNSIRSFNSITTQS", "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": "Ser43", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53168", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53168" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029" }, { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser43" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53168-1.37.37", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53168-1.38.38", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53168-1.47.47", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53168-1.50.50", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53168-1.52.52", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53168-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53168-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "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": "P53168", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53168" }, { "database": "O-GlcNAc Atlas", "id": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168" } ], "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": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LNNTTNKFPKSTGGGASDNI", "down_seq": "ANSNSIRSFNSITTQSLLKE", "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": "Ser47", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53168", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53168" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53168-1.37.37", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53168-1.38.38", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53168-1.43.43", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53168-1.50.50", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53168-1.52.52", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53168-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53168-1.67.67", "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", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 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": "P53168-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "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": "P53168", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53168" }, { "database": "O-GlcNAc Atlas", "id": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168" } ], "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": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TTNKFPKSTGGGASDNISAN", "down_seq": "NSIRSFNSITTQSLLKESES", "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": "Ser50", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53168", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53168" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53168-1.37.37", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53168-1.38.38", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53168-1.43.43", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53168-1.47.47", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53168-1.52.52", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53168-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53168-1.67.67", "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", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 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": "P53168-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "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": "P53168", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53168" }, { "database": "O-GlcNAc Atlas", "id": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168" } ], "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": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NKFPKSTGGGASDNISANSN", "down_seq": "IRSFNSITTQSLLKESESLD", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser52", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53168", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53168" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53168-1.37.37", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53168-1.38.38", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53168-1.43.43", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53168-1.47.47", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53168-1.50.50", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53168-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53168-1.67.67", "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", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 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": "P53168-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "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": "P53168", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53168" }, { "database": "O-GlcNAc Atlas", "id": "P53168", "url": "https://oglcnac.org/atlas/detail/P53168" } ], "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": "P53168", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53168", "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": "P53168", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53168" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53168-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53168-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53168-1.11.11", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53168-1.117.117", "start_pos": 117, "end_pos": 117, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Saccharomyces cerevisiae Duo1p and Dam1p, novel proteins involved in mitotic spindle function.", "journal": "The Journal of cell biology", "date": "1998-11-16", "authors": "Hofmann C, Cheeseman I M, Goode B L, McDonald K L, Barnes G, Drubin D G", "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "reference": [ { "type": "PubMed", "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759" } ] } ], "crossref": [ { "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "HEVCKSTNSILDSWINIHSQ", "down_seq": "GYIHKLMSDQTYLKLINDRL", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "T", "comment": "In DUO1-2; produces abnormal spindles resulting in growth arrest at 37 degrees Celsius; when associated with I-124.", "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" }, { "database": "PubMed", "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P53168-1.124.124", "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": "P53168-1.124.124", "start_pos": 124, "end_pos": 124, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Saccharomyces cerevisiae Duo1p and Dam1p, novel proteins involved in mitotic spindle function.", "journal": "The Journal of cell biology", "date": "1998-11-16", "authors": "Hofmann C, Cheeseman I M, Goode B L, McDonald K L, Barnes G, Drubin D G", "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "reference": [ { "type": "PubMed", "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759" } ] } ], "crossref": [ { "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "M", "start_aa": "M", "up_seq": "NSILDSWINIHSQAGYIHKL", "down_seq": "SDQTYLKLINDRLHNENVNT", "mutagenesis": [ { "sequence_org": "M", "sequence_mut": "I", "comment": "In DUO1-2; produces abnormal spindles resulting in growth arrest at 37 degrees Celsius; when associated with T-117.", "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" }, { "database": "PubMed", "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53168-1.117.117", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53168-1.157.157", "start_pos": 157, "end_pos": 157, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Saccharomyces cerevisiae Duo1p and Dam1p, novel proteins involved in mitotic spindle function.", "journal": "The Journal of cell biology", "date": "1998-11-16", "authors": "Hofmann C, Cheeseman I M, Goode B L, McDonald K L, Barnes G, Drubin D G", "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "reference": [ { "type": "PubMed", "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759" } ] } ], "crossref": [ { "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "LHNENVNTNDEDGSTLHNVI", "down_seq": "LKKKEILDLRQKLENRKGEK", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "V", "comment": "In DUO1-1; produces abnormal spindles resulting in growth arrest at 37 degrees Celsius; when associated with K-67.", "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" }, { "database": "PubMed", "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "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": "P53168-1.67.67", "start_pos": 67, "end_pos": 67, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Saccharomyces cerevisiae Duo1p and Dam1p, novel proteins involved in mitotic spindle function.", "journal": "The Journal of cell biology", "date": "1998-11-16", "authors": "Hofmann C, Cheeseman I M, Goode B L, McDonald K L, Barnes G, Drubin D G", "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "reference": [ { "type": "PubMed", "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759" } ] } ], "crossref": [ { "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "SANSNSIRSFNSITTQSLLK", "down_seq": "SESLDKITAMIKNVTAALKN", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "K", "comment": "In DUO1-1; produces abnormal spindles resulting in growth arrest at 37 degrees Celsius; when associated with V-157.", "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" }, { "database": "PubMed", "id": "9817759", "url": "https://glygen.org/publication/PubMed/9817759" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53168-1.47.47", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53168-1.50.50", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53168-1.52.52", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53168-1.55.55", "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": "P53168-1.11.11", "start_pos": 11, "end_pos": 11, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "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": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MSEQSQLDDS", "down_seq": "IDKLIPQIFNEMRSNLNNTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029" }, { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr11" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53168-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53168-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53168-1.5.5", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53168-1.225.225", "start_pos": 225, "end_pos": 225, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AGISNNGRVRKTHVPASKRP", "down_seq": "GIPRVTNRWTKPTASSSRKM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029" }, { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser225" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53168-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "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": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" } ], "reference": [ { "type": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "M", "down_seq": "EQSQLDDSTIDKLIPQIFNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029" }, { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53168-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53168-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53168-1.11.11", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53168-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & 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": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" } ], "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": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029", "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": "PKSTGGGASDNISANSNSIR", "down_seq": "FNSITTQSLLKESESLDKIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser55" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53168-1.37.37", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53168-1.38.38", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53168-1.43.43", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53168-1.47.47", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53168-1.50.50", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53168-1.52.52", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53168-1.67.67", "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": "P53168-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "P53168-1", "length": 247, "uniprot_id": "DUO1_YEAST", "protein_name": "DASH complex subunit DUO1", "refseq_ac": "NP_011454", "refseq_name": "Duo1p", "gene_name": "DUO1", "gene_names_uniprotkb": "DUO1", "gene_names_refseq": "DUO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53168", "url": "https://www.uniprot.org/uniprotkb/P53168" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSEQ", "down_seq": "QLDDSTIDKLIPQIFNEMRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003029", "url": "https://www.yeastgenome.org/locus/S000003029" }, { "database": "iPTMnet", "id": "P53168", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53168" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser5" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "37", "end_pos": "37" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "52", "end_pos": "52" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "157", "end_pos": "157" }, { "start_pos": "67", "end_pos": "67" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "225", "end_pos": "225" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "43", "end_pos": "43" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53168-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53168-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53168-1.11.11", "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": "P53188-1.42.42", "start_pos": 42, "end_pos": 42, "uniprot_canonical_ac": "P53188-1", "length": 120, "uniprot_id": "CGR1_YEAST", "protein_name": "rRNA-processing protein CGR1", "refseq_ac": "NP_011486", "refseq_name": "Cgr1p", "gene_name": "CGR1", "gene_names_uniprotkb": "CGR1", "gene_names_refseq": "CGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53188", "url": "https://www.uniprot.org/uniprotkb/P53188" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53188", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53188" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002997", "url": "https://www.yeastgenome.org/locus/S000002997", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53188", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53188", "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": "WKAEKTPLRAKSRVVKNKKL", "down_seq": "SWELKKQKRLEDKQFKERLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002997", "url": "https://www.yeastgenome.org/locus/S000002997" }, { "database": "iPTMnet", "id": "P53188", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53188" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr42" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53188-1.43.43", "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": "P53188-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "P53188-1", "length": 120, "uniprot_id": "CGR1_YEAST", "protein_name": "rRNA-processing protein CGR1", "refseq_ac": "NP_011486", "refseq_name": "Cgr1p", "gene_name": "CGR1", "gene_names_uniprotkb": "CGR1", "gene_names_refseq": "CGR1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53188", "url": "https://www.uniprot.org/uniprotkb/P53188" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53188", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53188" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002997", "url": "https://www.yeastgenome.org/locus/S000002997", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53188", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53188", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KAEKTPLRAKSRVVKNKKLT", "down_seq": "WELKKQKRLEDKQFKERLKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002997", "url": "https://www.yeastgenome.org/locus/S000002997" }, { "database": "iPTMnet", "id": "P53188", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53188" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser43" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "42", "end_pos": "42" }, { "start_pos": "43", "end_pos": "43" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53188-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53196-1.392.392", "start_pos": 392, "end_pos": 392, "uniprot_canonical_ac": "P53196-1", "length": 417, "uniprot_id": "RPN14_YEAST", "protein_name": "26S proteasome regulatory subunit RPN14", "refseq_ac": "NP_011511", "refseq_name": "Rpn14p", "gene_name": "RPN14", "gene_names_uniprotkb": "RPN14", "gene_names_refseq": "RPN14", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53196", "url": "https://www.uniprot.org/uniprotkb/P53196" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53196", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53196" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002972", "url": "https://www.yeastgenome.org/locus/S000002972", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53196", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53196", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FETPTFLVSNDDEVSQFCYV", "down_seq": "DDESNGEVLEVGKNNFCALY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002972", "url": "https://www.yeastgenome.org/locus/S000002972" }, { "database": "iPTMnet", "id": "P53196", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53196" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser392" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "392", "end_pos": "392" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53253-1.512.512", "start_pos": 512, "end_pos": 512, "uniprot_canonical_ac": "P53253-1", "length": 936, "uniprot_id": "NNF2_YEAST", "protein_name": "Protein NNF2", "refseq_ac": "NP_011603", "refseq_name": "Nnf2p", "gene_name": "NNF2", "gene_names_uniprotkb": "NNF2", "gene_names_refseq": "NNF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53253", "url": "https://www.uniprot.org/uniprotkb/P53253" } ], "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": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253", "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": "LWSMVVTLKTTNFEKKYLQE", "down_seq": "SENSLTPTNSNTSYVSNQEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr512" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "512", "end_pos": "512" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P53253-1.518.518", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53253-1.518.518", "start_pos": 518, "end_pos": 518, "uniprot_canonical_ac": "P53253-1", "length": 936, "uniprot_id": "NNF2_YEAST", "protein_name": "Protein NNF2", "refseq_ac": "NP_011603", "refseq_name": "Nnf2p", "gene_name": "NNF2", "gene_names_uniprotkb": "NNF2", "gene_names_refseq": "NNF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53253", "url": "https://www.uniprot.org/uniprotkb/P53253" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" } ], "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": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003321", "url": "https://www.yeastgenome.org/locus/S000003321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253", "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": "TLKTTNFEKKYLQETSENSL", "down_seq": "PTNSNTSYVSNQEKHDKDLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003321", "url": "https://www.yeastgenome.org/locus/S000003321" }, { "database": "iPTMnet", "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr518" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "512", "end_pos": "512" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "714", "end_pos": "714" }, { "start_pos": "831", "end_pos": "831" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53253-1.512.512", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53253-1.550.550", "start_pos": 550, "end_pos": 550, "uniprot_canonical_ac": "P53253-1", "length": 936, "uniprot_id": "NNF2_YEAST", "protein_name": "Protein NNF2", "refseq_ac": "NP_011603", "refseq_name": "Nnf2p", "gene_name": "NNF2", "gene_names_uniprotkb": "NNF2", "gene_names_refseq": "NNF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53253", "url": "https://www.uniprot.org/uniprotkb/P53253" } ], "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": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" } ], "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": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003321", "url": "https://www.yeastgenome.org/locus/S000003321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253", "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": "QEKHDKDLDTINTHSVSSRI", "down_seq": "FTHAGKFKKSVFNNFEPSNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003321", "url": "https://www.yeastgenome.org/locus/S000003321" }, { "database": "iPTMnet", "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser550" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "512", "end_pos": "512" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "714", "end_pos": "714" }, { "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53253-1.714.714", "start_pos": 714, "end_pos": 714, "uniprot_canonical_ac": "P53253-1", "length": 936, "uniprot_id": "NNF2_YEAST", "protein_name": "Protein NNF2", "refseq_ac": "NP_011603", "refseq_name": "Nnf2p", "gene_name": "NNF2", "gene_names_uniprotkb": "NNF2", "gene_names_refseq": "NNF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53253", "url": "https://www.uniprot.org/uniprotkb/P53253" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003321", "url": "https://www.yeastgenome.org/locus/S000003321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AGKFENLDFSFPSYYHRKFL", "down_seq": "PLLTLKHSVLTTNANLSDER", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003321", "url": "https://www.yeastgenome.org/locus/S000003321" }, { "database": "iPTMnet", "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser714" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "512", "end_pos": "512" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "714", "end_pos": "714" }, { "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": "P53253-1.831.831", "start_pos": 831, "end_pos": 831, "uniprot_canonical_ac": "P53253-1", "length": 936, "uniprot_id": "NNF2_YEAST", "protein_name": "Protein NNF2", "refseq_ac": "NP_011603", "refseq_name": "Nnf2p", "gene_name": "NNF2", "gene_names_uniprotkb": "NNF2", "gene_names_refseq": "NNF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53253", "url": "https://www.uniprot.org/uniprotkb/P53253" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003321", "url": "https://www.yeastgenome.org/locus/S000003321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YLKKKDLHLKNQLEFSKLEE", "down_seq": "LSKDLKNSEGRFQKVNQELV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003321", "url": "https://www.yeastgenome.org/locus/S000003321" }, { "database": "iPTMnet", "id": "P53253", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53253" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser831" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "512", "end_pos": "512" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "714", "end_pos": "714" }, { "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": "P53267-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Yeast Dam1p is required to maintain spindle integrity during mitosis and interacts with the Mps1p kinase.", "journal": "Molecular biology of the cell", "date": "1999-07", "authors": "Jones M H, Bachant J B, Castillo A R, Giddings T H, Winey M", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "reference": [ { "type": "PubMed", "id": "10397771", "url": "https://glygen.org/publication/PubMed/10397771" } ] } ], "crossref": [ { "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10397771", "url": "https://glygen.org/publication/PubMed/10397771", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "LADLNESLGSLLYGIMSNSW", "down_seq": "VEFSQAPHDIQDDLIAIKQL", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "Y", "comment": "In DAM1-1; produces abnormal spindles resulting in growth arrest at 34 degrees Celsius.", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "PubMed", "id": "10397771", "url": "https://glygen.org/publication/PubMed/10397771" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "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": "P53267-1.80.80", "start_pos": 80, "end_pos": 80, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "DASH/Dam1 complex mutants stabilize ploidy in histone-humanized yeast by weakening kinetochore-microtubule attachments.", "journal": "The EMBO journal", "date": "2023-01-18", "authors": "Haase Max A B, \u00d3lafsson Gu\u00f0j\u00f3n, Flores Rachel L, Boakye-Ansah Emmanuel, Zelter Alex, Dickinson Miles Sasha, Lazar-Stefanita Luciana, Truong David M, Asbury Charles L, Davis Trisha N, Boeke Jef D", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "reference": [ { "type": "PubMed", "id": "36651597", "url": "https://glygen.org/publication/PubMed/36651597" } ] } ], "crossref": [ { "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "36651597", "url": "https://glygen.org/publication/PubMed/36651597", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "QQLLLPKIRELSDSIITLDS", "down_seq": "FTRLNFIHESLADLNESLGS", "mutagenesis": [ { "sequence_org": "N", "sequence_mut": "Y", "comment": "Cold sensitive.", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "PubMed", "id": "36651597", "url": "https://glygen.org/publication/PubMed/36651597" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "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": "P53267-1.13.13", "start_pos": 13, "end_pos": 13, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mps1 phosphorylation of Dam1 couples kinetochores to microtubule plus ends at metaphase.", "journal": "Current biology : CB", "date": "2006-08-08", "authors": "Shimogawa Michelle M, Graczyk Beth, Gardner Melissa K, Francis Susan E, White Erin A, Ess Michael, Molk Jeffrey N, Ruse Cristian, Niessen Sherry, Yates John R, Muller Eric G D, Bloom Kerry, Odde David J, Davis Trisha N", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSEDKAKLGTTR", "down_seq": "ATEYRLSIGSAPTSRRSSMG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P54199-1", "kinase_gene_name": "MPS1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ], "site_lbl": "Ser13" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53267-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53267-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53267-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53267-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53267-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53267-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53267-1.31.31", "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": "P53267-1.15.15", "start_pos": 15, "end_pos": 15, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "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": "MSEDKAKLGTTRSA", "down_seq": "EYRLSIGSAPTSRRSSMGES", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr15" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53267-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53267-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53267-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53267-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53267-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53267-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53267-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53267-1.35.35", "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": "P53267-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "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": "MSEDKAKLGTTRSATE", "down_seq": "RLSIGSAPTSRRSSMGESSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr17" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53267-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53267-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53267-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53267-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53267-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53267-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53267-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53267-1.35.35", "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": "P53267-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "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": "SQNKQFNQPLFPSSQVRKYR", "down_seq": "YDNRDKRKPSKIGNNLQVEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Ser188" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phospho-regulation of kinetochore-microtubule attachments by the Aurora kinase Ipl1p.", "journal": "Cell", "date": "2002", "authors": "Cheeseman IM, Anderson S, Jwa M, Green EM, Kang Js, Yates JR 3rd, Chan CS, Drubin DG, Barnes G", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Ipl1-dependent phosphorylation of Dam1 is reduced by tension applied on kinetochores.", "journal": "Journal of cell science", "date": "2009-12-01", "authors": "Keating Patrick, Rachidi Najma, Tanaka Tomoyuki U, Stark Michael J R", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271" } ] }, { "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] }, { "title": "Cooperation of the Dam1 and Ndc80 kinetochore complexes enhances microtubule coupling and is regulated by aurora B.", "journal": "The Journal of cell biology", "date": "2010-05-17", "authors": "Tien Jerry F, Umbreit Neil T, Gestaut Daniel R, Franck Andrew D, Cooper Jeremy, Wordeman Linda, Gonen Tamir, Asbury Charles L, Davis Trisha N", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "20479468", "url": "https://glygen.org/publication/PubMed/20479468" } ] }, { "title": "Cdk1 Phosphorylation of the Dam1 Complex Strengthens Kinetochore-Microtubule Attachments.", "journal": "Current biology : CB", "date": "2020-11-16", "authors": "Gutierrez Abraham, Kim Jae Ook, Umbreit Neil T, Asbury Charles L, Davis Trisha N, Miller Matthew P, Biggins Sue", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "32946748", "url": "https://glygen.org/publication/PubMed/32946748" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271", "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": "20479468", "url": "https://glygen.org/publication/PubMed/20479468", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32946748", "url": "https://glygen.org/publication/PubMed/32946748", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "", "down_seq": "IGSAPTSRRSSMGESSSLMK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by IPL1", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271" }, { "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": "20479468", "url": "https://glygen.org/publication/PubMed/20479468" }, { "database": "PubMed", "id": "32946748", "url": "https://glygen.org/publication/PubMed/32946748" }, { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser20" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53267-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53267-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53267-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53267-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53267-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53267-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53267-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53267-1.35.35", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.217.217", "start_pos": 217, "end_pos": 217, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mps1 phosphorylation of Dam1 couples kinetochores to microtubule plus ends at metaphase.", "journal": "Current biology : CB", "date": "2006-08-08", "authors": "Shimogawa Michelle M, Graczyk Beth, Gardner Melissa K, Francis Susan E, White Erin A, Ess Michael, Molk Jeffrey N, Ruse Cristian, Niessen Sherry, Yates John R, Muller Eric G D, Bloom Kerry, Odde David J, Davis Trisha N", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSKIGNNLQVENEEDYEDDT", "down_seq": "SEASFVLNPTNIGMSKSSQG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P54199-1", "kinase_gene_name": "MPS1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ], "site_lbl": "Ser217" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53267-1.218.218", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53267-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53267-1.232.232", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.218.218", "start_pos": 218, "end_pos": 218, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mps1 phosphorylation of Dam1 couples kinetochores to microtubule plus ends at metaphase.", "journal": "Current biology : CB", "date": "2006-08-08", "authors": "Shimogawa Michelle M, Graczyk Beth, Gardner Melissa K, Francis Susan E, White Erin A, Ess Michael, Molk Jeffrey N, Ruse Cristian, Niessen Sherry, Yates John R, Muller Eric G D, Bloom Kerry, Odde David J, Davis Trisha N", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ] }, { "title": "Mps1 promotes chromosome meiotic chromosome biorientation through Dam1.", "journal": "Molecular biology of the cell", "date": "2018-02-15", "authors": "Meyer R\u00e9gis E, Brown Jamin, Beck Lindsay, Dawson Dean S", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "29237818", "url": "https://glygen.org/publication/PubMed/29237818" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524", "database": "PubMed", "categories": [ "Other" ] }, { "id": "29237818", "url": "https://glygen.org/publication/PubMed/29237818", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKIGNNLQVENEEDYEDDTS", "down_seq": "EASFVLNPTNIGMSKSSQGH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P54199-1", "kinase_gene_name": "MPS1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ], "site_lbl": "Ser218" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "29237818", "url": "https://glygen.org/publication/PubMed/29237818" }, { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ], "site_lbl": "Ser218" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53267-1.217.217", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53267-1.221.221", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53267-1.232.232", "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": 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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.221.221", "start_pos": 221, "end_pos": 221, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mps1 phosphorylation of Dam1 couples kinetochores to microtubule plus ends at metaphase.", "journal": "Current biology : CB", "date": "2006-08-08", "authors": "Shimogawa Michelle M, Graczyk Beth, Gardner Melissa K, Francis Susan E, White Erin A, Ess Michael, Molk Jeffrey N, Ruse Cristian, Niessen Sherry, Yates John R, Muller Eric G D, Bloom Kerry, Odde David J, Davis Trisha N", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ] }, { "title": "Mps1 promotes chromosome meiotic chromosome biorientation through Dam1.", "journal": "Molecular biology of the cell", "date": "2018-02-15", "authors": "Meyer R\u00e9gis E, Brown Jamin, Beck Lindsay, Dawson Dean S", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "29237818", "url": "https://glygen.org/publication/PubMed/29237818" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524", "database": "PubMed", "categories": [ "Other" ] }, { "id": "29237818", "url": "https://glygen.org/publication/PubMed/29237818", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GNNLQVENEEDYEDDTSSEA", "down_seq": "FVLNPTNIGMSKSSQGHVTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P54199-1", "kinase_gene_name": "MPS1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ], "site_lbl": "Ser221" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "29237818", "url": "https://glygen.org/publication/PubMed/29237818" }, { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ], "site_lbl": "Ser221" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53267-1.217.217", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53267-1.218.218", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53267-1.232.232", "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": 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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.232.232", "start_pos": 232, "end_pos": 232, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mps1 phosphorylation of Dam1 couples kinetochores to microtubule plus ends at metaphase.", "journal": "Current biology : CB", "date": "2006-08-08", "authors": "Shimogawa Michelle M, Graczyk Beth, Gardner Melissa K, Francis Susan E, White Erin A, Ess Michael, Molk Jeffrey N, Ruse Cristian, Niessen Sherry, Yates John R, Muller Eric G D, Bloom Kerry, Odde David J, Davis Trisha N", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YEDDTSSEASFVLNPTNIGM", "down_seq": "KSSQGHVTKTTRLNNNTNSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P54199-1", "kinase_gene_name": "MPS1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ], "site_lbl": "Ser232" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53267-1.217.217", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53267-1.218.218", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53267-1.221.221", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.23.23", "start_pos": 23, "end_pos": 23, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "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": "EDKAKLGTTRSATEYRLSIG", "down_seq": "APTSRRSSMGESSSLMKFAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "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": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "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": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53267-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53267-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53267-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53267-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53267-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53267-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53267-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53267-1.35.35", "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": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.257.257", "start_pos": 257, "end_pos": 257, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phospho-regulation of kinetochore-microtubule attachments by the Aurora kinase Ipl1p.", "journal": "Cell", "date": "2002", "authors": "Cheeseman IM, Anderson S, Jwa M, Green EM, Kang Js, Yates JR 3rd, Chan CS, Drubin DG, Barnes G", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Ipl1-dependent phosphorylation of Dam1 is reduced by tension applied on kinetochores.", "journal": "Journal of cell science", "date": "2009-12-01", "authors": "Keating Patrick, Rachidi Najma, Tanaka Tomoyuki U, Stark Michael J R", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271" } ] }, { "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "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": "GHVTKTTRLNNNTNSKLRRK", "down_seq": "ILHTIRNSIASGADLPIEND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by IPL1", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "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": "Ser257" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P53267-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53267-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53267-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.261.261", "start_pos": 261, "end_pos": 261, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cell cycle phosphorylation of mitotic exit network (MEN) proteins.", "journal": "Cell cycle (Georgetown, Tex.)", "date": "2011-10-15", "authors": "Jones Michele H, Keck Jamie M, Wong Catherine C L, Xu Tao, Yates John R, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ] } ], "crossref": [ { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KTTRLNNNTNSKLRRKSILH", "down_seq": "IRNSIASGADLPIENDNVVN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "22031224", "url": "https://glygen.org/publication/PubMed/22031224" } ], "site_lbl": "Thr261" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53267-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53267-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53267-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.265.265", "start_pos": 265, "end_pos": 265, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phospho-regulation of kinetochore-microtubule attachments by the Aurora kinase Ipl1p.", "journal": "Cell", "date": "2002", "authors": "Cheeseman IM, Anderson S, Jwa M, Green EM, Kang Js, Yates JR 3rd, Chan CS, Drubin DG, Barnes G", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Ipl1-dependent phosphorylation of Dam1 is reduced by tension applied on kinetochores.", "journal": "Journal of cell science", "date": "2009-12-01", "authors": "Keating Patrick, Rachidi Najma, Tanaka Tomoyuki U, Stark Michael J R", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LNNNTNSKLRRKSILHTIRN", "down_seq": "IASGADLPIENDNVVNLGDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by IPL1", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271" }, { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser265" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53267-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53267-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53267-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.268.268", "start_pos": 268, "end_pos": 268, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "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": "NTNSKLRRKSILHTIRNSIA", "down_seq": "GADLPIENDNVVNLGDLHPN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser268" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53267-1.257.257", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53267-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53267-1.265.265", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "AKLGTTRSATEYRLSIGSAP", "down_seq": "SRRSSMGESSSLMKFADQEG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "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": "Thr26" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53267-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53267-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53267-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53267-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53267-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53267-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53267-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53267-1.35.35", "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": "P53267-1.27.27", "start_pos": 27, "end_pos": 27, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "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": "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": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLGTTRSATEYRLSIGSAPT", "down_seq": "RRSSMGESSSLMKFADQEGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser27" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53267-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53267-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53267-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53267-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53267-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53267-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53267-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53267-1.35.35", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.292.292", "start_pos": 292, "end_pos": 292, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Phospho-regulation of kinetochore-microtubule attachments by the Aurora kinase Ipl1p.", "journal": "Cell", "date": "2002", "authors": "Cheeseman IM, Anderson S, Jwa M, Green EM, Kang Js, Yates JR 3rd, Chan CS, Drubin DG, Barnes G", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Ipl1-dependent phosphorylation of Dam1 is reduced by tension applied on kinetochores.", "journal": "Journal of cell science", "date": "2009-12-01", "authors": "Keating Patrick, Rachidi Najma, Tanaka Tomoyuki U, Stark Michael J R", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271" } ] }, { "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "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": "LPIENDNVVNLGDLHPNNRI", "down_seq": "LGSGAARVVNGPVTKNRNSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by IPL1", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "12408861", "url": "https://glygen.org/publication/PubMed/12408861" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19923271", "url": "https://glygen.org/publication/PubMed/19923271" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser292" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53267-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53267-1.311.311", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "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": "ENDNVVNLGDLHPNNRISLG", "down_seq": "GAARVVNGPVTKNRNSMFSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser295" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53267-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53267-1.311.311", "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": "P53267-1.30.30", "start_pos": 30, "end_pos": 30, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "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": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "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": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "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": "TTRSATEYRLSIGSAPTSRR", "down_seq": "SMGESSSLMKFADQEGLTSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "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": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser30" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53267-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53267-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53267-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53267-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53267-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53267-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53267-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53267-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53267-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53267-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53267-1.49.49", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.311.311", "start_pos": 311, "end_pos": 311, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ISLGSGAARVVNGPVTKNRN", "down_seq": "MFSGRAERKPTESRHSVAKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Ser311" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53267-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53267-1.295.295", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.31.31", "start_pos": 31, "end_pos": 31, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "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": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "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": "TRSATEYRLSIGSAPTSRRS", "down_seq": "MGESSSLMKFADQEGLTSSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "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": "Ser31" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53267-1.13.13", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53267-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53267-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53267-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53267-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53267-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53267-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53267-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53267-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53267-1.49.49", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "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": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "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": "TEYRLSIGSAPTSRRSSMGE", "down_seq": "SSLMKFADQEGLTSSVGEYN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser35" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53267-1.15.15", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53267-1.17.17", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53267-1.20.20", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53267-1.23.23", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53267-1.26.26", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53267-1.27.27", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53267-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53267-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53267-1.49.49", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.48.48", "start_pos": 48, "end_pos": 48, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "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": "RRSSMGESSSLMKFADQEGL", "down_seq": "SSVGEYNENTIQQLLLPKIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003345", "url": "https://www.yeastgenome.org/locus/S000003345" }, { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr48" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53267-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53267-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53267-1.49.49", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53267-1.49.49", "start_pos": 49, "end_pos": 49, "uniprot_canonical_ac": "P53267-1", "length": 343, "uniprot_id": "DAM1_YEAST", "protein_name": "DASH complex subunit DAM1", "refseq_ac": "NP_011628", "refseq_name": "Dam1p", "gene_name": "DAM1", "gene_names_uniprotkb": "DAM1; G6153", "gene_names_refseq": "DAM1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53267", "url": "https://www.uniprot.org/uniprotkb/P53267" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Mps1 phosphorylation of Dam1 couples kinetochores to microtubule plus ends at metaphase.", "journal": "Current biology : CB", "date": "2006-08-08", "authors": "Shimogawa Michelle M, Graczyk Beth, Gardner Melissa K, Francis Susan E, White Erin A, Ess Michael, Molk Jeffrey N, Ruse Cristian, Niessen Sherry, Yates John R, Muller Eric G D, Bloom Kerry, Odde David J, Davis Trisha N", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" } ], "reference": [ { "type": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ] } ], "crossref": [ { "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RSSMGESSSLMKFADQEGLT", "down_seq": "SVGEYNENTIQQLLLPKIRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P54199-1", "kinase_gene_name": "MPS1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53267", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53267" }, { "database": "PubMed", "id": "16890524", "url": "https://glygen.org/publication/PubMed/16890524" } ], "site_lbl": "Ser49" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "80", "end_pos": "80" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "15", "end_pos": "15" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "217", "end_pos": "217" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "221", "end_pos": "221" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "23", "end_pos": "23" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "27", "end_pos": "27" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "49", "end_pos": "49" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53267-1.30.30", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53267-1.31.31", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53267-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53267-1.48.48", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53277-1.104.104", "start_pos": 104, "end_pos": 104, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QGKTGQSQRGGISYDQLAKL", "down_seq": "YEKTLRNLATQTQNSSKQDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser104" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53277-1.96.96", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53277-1.119.119", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53277-1.120.120", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53277-1.124.124", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53277-1.119.119", "start_pos": 119, "end_pos": 119, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "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": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QLAKLSYEKTLRNLATQTQN", "down_seq": "SKQDSSADEEDNKNVPKKGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "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": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" } ], "site_lbl": "Ser119" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53277-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53277-1.120.120", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53277-1.124.124", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53277-1.125.125", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53277-1.120.120", "start_pos": 120, "end_pos": 120, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "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": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "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": "LAKLSYEKTLRNLATQTQNS", "down_seq": "KQDSSADEEDNKNVPKKGRI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "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": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser120" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53277-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53277-1.119.119", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53277-1.124.124", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53277-1.125.125", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53277-1.124.124", "start_pos": 124, "end_pos": 124, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "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": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SYEKTLRNLATQTQNSSKQD", "down_seq": "SADEEDNKNVPKKGRIGKVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "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": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser124" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53277-1.104.104", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53277-1.119.119", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53277-1.120.120", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53277-1.125.125", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53277-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277", "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YEKTLRNLATQTQNSSKQDS", "down_seq": "ADEEDNKNVPKKGRIGKVQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser125" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53277-1.119.119", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53277-1.120.120", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53277-1.124.124", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53277-1.188.188", "start_pos": 188, "end_pos": 188, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "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": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LQSESKKRYEARKRQMQNAK", "down_seq": "LYGVESFINDKNKQFNEKLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "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": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" } ], "site_lbl": "Thr188" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53277-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RKLADREIQEVSANRKPRVY", "down_seq": "MEDVNDADESVGDTESPEKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser45" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "P53277-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53277-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53277-1.61.61", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53277-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "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": "VSANRKPRVYSMEDVNDADE", "down_seq": "VGDTESPEKEKAFHYTVQEY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "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": "Ser55" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53277-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53277-1.59.59", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53277-1.61.61", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53277-1.59.59", "start_pos": 59, "end_pos": 59, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "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": "RKPRVYSMEDVNDADESVGD", "down_seq": "ESPEKEKAFHYTVQEYDAWE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr59" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53277-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53277-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53277-1.61.61", "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": "P53277-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "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": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "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": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "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": "PRVYSMEDVNDADESVGDTE", "down_seq": "PEKEKAFHYTVQEYDAWERR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "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": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" }, { "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": "Ser61" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53277-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53277-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53277-1.59.59", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53277-1.96.96", "start_pos": 96, "end_pos": 96, "uniprot_canonical_ac": "P53277-1", "length": 215, "uniprot_id": "SYF2_YEAST", "protein_name": "Pre-mRNA-splicing factor SYF2", "refseq_ac": "NP_011645", "refseq_name": "Syf2p", "gene_name": "SYF2", "gene_names_uniprotkb": "SYF2; NTC31", "gene_names_refseq": "NTC31; SYF2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53277", "url": "https://www.uniprot.org/uniprotkb/P53277" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DAWERRHPQGKTGQSQRGGI", "down_seq": "YDQLAKLSYEKTLRNLATQT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003361", "url": "https://www.yeastgenome.org/locus/S000003361" }, { "database": "iPTMnet", "id": "P53277", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53277" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser96" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "104", "end_pos": "104" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "188", "end_pos": "188" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "59", "end_pos": "59" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "96", "end_pos": "96" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "upstream", "id": "P53277-1.104.104", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53317-1.103.103", "start_pos": 103, "end_pos": 103, "uniprot_canonical_ac": "P53317-1", "length": 196, "uniprot_id": "NOP19_YEAST", "protein_name": "Nucleolar protein 19", "refseq_ac": "NP_011767", "refseq_name": "Nop19p", "gene_name": "NOP19", "gene_names_uniprotkb": "NOP19", "gene_names_refseq": "NOP19", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53317", "url": "https://www.uniprot.org/uniprotkb/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317", "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": "ASAKEDIHTIGEFIEGDKKV", "down_seq": "SLAKKKKRSDPGLQRNNMYR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser103" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P53317-1.112.112", "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": "P53317-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "P53317-1", "length": 196, "uniprot_id": "NOP19_YEAST", "protein_name": "Nucleolar protein 19", "refseq_ac": "NP_011767", "refseq_name": "Nop19p", "gene_name": "NOP19", "gene_names_uniprotkb": "NOP19", "gene_names_refseq": "NOP19", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53317", "url": "https://www.uniprot.org/uniprotkb/P53317" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003483", "url": "https://www.yeastgenome.org/locus/S000003483", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IGEFIEGDKKVSSLAKKKKR", "down_seq": "DPGLQRNNMYRITKDDTKAM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003483", "url": "https://www.yeastgenome.org/locus/S000003483" }, { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser112" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53317-1.103.103", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53317-1.156.156", "start_pos": 156, "end_pos": 156, "uniprot_canonical_ac": "P53317-1", "length": 196, "uniprot_id": "NOP19_YEAST", "protein_name": "Nucleolar protein 19", "refseq_ac": "NP_011767", "refseq_name": "Nop19p", "gene_name": "NOP19", "gene_names_uniprotkb": "NOP19", "gene_names_refseq": "NOP19", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53317", "url": "https://www.uniprot.org/uniprotkb/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003483", "url": "https://www.yeastgenome.org/locus/S000003483", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KRKMRKGEKEGLRKKQEHSK", "down_seq": "SVSNSYSASDEEDEDAGTMP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003483", "url": "https://www.yeastgenome.org/locus/S000003483" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser156" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "P53317-1.162.162", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53317-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53317-1.165.165", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53317-1.162.162", "start_pos": 162, "end_pos": 162, "uniprot_canonical_ac": "P53317-1", "length": 196, "uniprot_id": "NOP19_YEAST", "protein_name": "Nucleolar protein 19", "refseq_ac": "NP_011767", "refseq_name": "Nop19p", "gene_name": "NOP19", "gene_names_uniprotkb": "NOP19", "gene_names_refseq": "NOP19", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53317", "url": "https://www.uniprot.org/uniprotkb/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] } ], "crossref": [ { "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003483", "url": "https://www.yeastgenome.org/locus/S000003483", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "GEKEGLRKKQEHSKSSVSNS", "down_seq": "SASDEEDEDAGTMPQKSTKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003483", "url": "https://www.yeastgenome.org/locus/S000003483" } ], "site_lbl": "Tyr162" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53317-1.156.156", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53317-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53317-1.165.165", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53317-1.163.163", "start_pos": 163, "end_pos": 163, "uniprot_canonical_ac": "P53317-1", "length": 196, "uniprot_id": "NOP19_YEAST", "protein_name": "Nucleolar protein 19", "refseq_ac": "NP_011767", "refseq_name": "Nop19p", "gene_name": "NOP19", "gene_names_uniprotkb": "NOP19", "gene_names_refseq": "NOP19", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53317", "url": "https://www.uniprot.org/uniprotkb/P53317" } ], "common_name": "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": "P53317", "url": "https://www.uniprot.org/uniprotkb/P53317" }, { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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", "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": "P53317", "url": "https://www.uniprot.org/uniprotkb/P53317" }, { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317", "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": "S000003483", "url": "https://www.yeastgenome.org/locus/S000003483", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EKEGLRKKQEHSKSSVSNSY", "down_seq": "ASDEEDEDAGTMPQKSTKKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" }, { "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": "S000003483", "url": "https://www.yeastgenome.org/locus/S000003483" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser163" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53317-1.156.156", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53317-1.162.162", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53317-1.165.165", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53317-1.165.165", "start_pos": 165, "end_pos": 165, "uniprot_canonical_ac": "P53317-1", "length": 196, "uniprot_id": "NOP19_YEAST", "protein_name": "Nucleolar protein 19", "refseq_ac": "NP_011767", "refseq_name": "Nop19p", "gene_name": "NOP19", "gene_names_uniprotkb": "NOP19", "gene_names_refseq": "NOP19", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53317", "url": "https://www.uniprot.org/uniprotkb/P53317" } ], "common_name": "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": "P53317", "url": "https://www.uniprot.org/uniprotkb/P53317" }, { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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", "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": "P53317", "url": "https://www.uniprot.org/uniprotkb/P53317" }, { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "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": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317", "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": "S000003483", "url": "https://www.yeastgenome.org/locus/S000003483", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EGLRKKQEHSKSSVSNSYSA", "down_seq": "DEEDEDAGTMPQKSTKKKFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53317", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53317" }, { "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": "S000003483", "url": "https://www.yeastgenome.org/locus/S000003483" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser165" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "156", "end_pos": "156" }, { "start_pos": "162", "end_pos": "162" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "165", "end_pos": "165" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53317-1.156.156", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53317-1.162.162", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53317-1.163.163", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P53330-1.21.21", "start_pos": 21, "end_pos": 21, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "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": "P53330", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53330" }, { "database": "O-GlcNAc Atlas", "id": "P53330", "url": "https://oglcnac.org/atlas/detail/P53330" } ], "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": "P53330", "url": "https://oglcnac.org/atlas/detail/P53330", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MDPQTLITKANKVSYYGNPT", "down_seq": "KESWRYDWYQPSKVSSNVQQ", "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": "Ser21", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53330", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53330" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53330-1.14.14", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53330-1.24.24", "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": "P53330-1.24.24", "start_pos": 24, "end_pos": 24, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "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": "P53330", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53330" }, { "database": "O-GlcNAc Atlas", "id": "P53330", "url": "https://oglcnac.org/atlas/detail/P53330" } ], "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": "P53330", "url": "https://oglcnac.org/atlas/detail/P53330", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QTLITKANKVSYYGNPTSKE", "down_seq": "WRYDWYQPSKVSSNVQQPQQ", "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": "Ser24", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53330", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53330" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53330-1.14.14", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53330-1.21.21", "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": "P53330-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "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": "P53330", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53330" }, { "database": "O-GlcNAc Atlas", "id": "P53330", "url": "https://oglcnac.org/atlas/detail/P53330" } ], "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": "P53330", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53330", "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": "P53330", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53330" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P53330-1.14.14", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53330-1.106.106", "start_pos": 106, "end_pos": 106, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" }, { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EFDRRILKKSLMTSHTKGDT", "down_seq": "KATGAPSANQGDEALSVDDI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507" } ], "site_lbl": "Ser106" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53330-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53330-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53330-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53330-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53330-1.122.122", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53330-1.109.109", "start_pos": 109, "end_pos": 109, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "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": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330", "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": "RRILKKSLMTSHTKGDTSKA", "down_seq": "GAPSANQGDEALSVDDIRGA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr109" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53330-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53330-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53330-1.106.106", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53330-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53330-1.122.122", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53330-1.113.113", "start_pos": 113, "end_pos": 113, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330", "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": "KKSLMTSHTKGDTSKATGAP", "down_seq": "ANQGDEALSVDDIRGAVGNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507" }, { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser113" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53330-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53330-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53330-1.106.106", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53330-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53330-1.122.122", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53330-1.122.122", "start_pos": 122, "end_pos": 122, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" }, { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "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": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" }, { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "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": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330", "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": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507", "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": "KGDTSKATGAPSANQGDEAL", "down_seq": "VDDIRGAVGNSEAIPGLSAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" }, { "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": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" }, { "database": "SGD", "id": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507" }, { "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": "Ser122" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53330-1.106.106", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53330-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53330-1.113.113", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53330-1.14.14", "start_pos": 14, "end_pos": 14, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330", "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": "MDPQTLITKANKV", "down_seq": "YYGNPTSKESWRYDWYQPSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507" }, { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser14" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53330-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53330-1.21.21", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53330-1.24.24", "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": "P53330-1.151.151", "start_pos": 151, "end_pos": 151, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" }, { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GNSEAIPGLSAGVNNDNTKE", "down_seq": "KDVKMN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507" } ], "site_lbl": "Ser151" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "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": "P53330-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" }, { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "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": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "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": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "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": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330", "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": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507", "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": "PFRYKTWLRNQEDEKNLQRE", "down_seq": "CEDILDLKEFDRRILKKSLM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" }, { "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": "S000003507", "url": "https://www.yeastgenome.org/locus/S000003507" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P53330-1.95.95", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53330-1.95.95", "start_pos": 95, "end_pos": 95, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "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": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330", "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": "RESCEDILDLKEFDRRILKK", "down_seq": "LMTSHTKGDTSKATGAPSAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser95" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53330-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53330-1.98.98", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53330-1.106.106", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53330-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53330-1.113.113", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53330-1.98.98", "start_pos": 98, "end_pos": 98, "uniprot_canonical_ac": "P53330-1", "length": 157, "uniprot_id": "RT102_YEAST", "protein_name": "Regulator of Ty1 transposition protein 102", "refseq_ac": "NP_011791", "refseq_name": "Rtt102p", "gene_name": "RTT102", "gene_names_uniprotkb": "RTT102; G9378", "gene_names_refseq": "RTT102", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53330", "url": "https://www.uniprot.org/uniprotkb/P53330" } ], "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": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330", "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": "CEDILDLKEFDRRILKKSLM", "down_seq": "SHTKGDTSKATGAPSANQGD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53330", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53330" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr98" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "21", "end_pos": "21" }, { "start_pos": "24", "end_pos": "24" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "106", "end_pos": "106" }, { "start_pos": "109", "end_pos": "109" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "95", "end_pos": "95" }, { "start_pos": "98", "end_pos": "98" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53330-1.95.95", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53330-1.106.106", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53330-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53330-1.113.113", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53332-1.292.292", "start_pos": 292, "end_pos": 292, "uniprot_canonical_ac": "P53332-1", "length": 305, "uniprot_id": "COAD_YEAST", "protein_name": "Phosphopantetheine adenylyltransferase", "refseq_ac": "NP_011793", "refseq_name": "putative pantetheine-phosphate adenylyltransferase", "gene_name": "CAB4", "gene_names_uniprotkb": "CAB4", "gene_names_refseq": "CAB4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53332", "url": "https://www.uniprot.org/uniprotkb/P53332" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003509", "url": "https://www.yeastgenome.org/locus/S000003509", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332", "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": "REEDGWSEKLSSTEIRRLLK", "down_seq": "SASPTCTPQNPCV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003509", "url": "https://www.yeastgenome.org/locus/S000003509" }, { "database": "iPTMnet", "id": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser292" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53332-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53332-1.299.299", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53332-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P53332-1", "length": 305, "uniprot_id": "COAD_YEAST", "protein_name": "Phosphopantetheine adenylyltransferase", "refseq_ac": "NP_011793", "refseq_name": "putative pantetheine-phosphate adenylyltransferase", "gene_name": "CAB4", "gene_names_uniprotkb": "CAB4", "gene_names_refseq": "CAB4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53332", "url": "https://www.uniprot.org/uniprotkb/P53332" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332" } ], "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": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003509", "url": "https://www.yeastgenome.org/locus/S000003509", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332", "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": "DGWSEKLSSTEIRRLLKSSA", "down_seq": "PTCTPQNPCV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003509", "url": "https://www.yeastgenome.org/locus/S000003509" }, { "database": "iPTMnet", "id": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332" }, { "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": "Ser295" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53332-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53332-1.299.299", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53332-1.299.299", "start_pos": 299, "end_pos": 299, "uniprot_canonical_ac": "P53332-1", "length": 305, "uniprot_id": "COAD_YEAST", "protein_name": "Phosphopantetheine adenylyltransferase", "refseq_ac": "NP_011793", "refseq_name": "putative pantetheine-phosphate adenylyltransferase", "gene_name": "CAB4", "gene_names_uniprotkb": "CAB4", "gene_names_refseq": "CAB4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53332", "url": "https://www.uniprot.org/uniprotkb/P53332" } ], "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": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000003509", "url": "https://www.yeastgenome.org/locus/S000003509", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332", "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": "EKLSSTEIRRLLKSSASPTC", "down_seq": "PQNPCV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003509", "url": "https://www.yeastgenome.org/locus/S000003509" }, { "database": "iPTMnet", "id": "P53332", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53332" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr299" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "292", "end_pos": "292" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53332-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53332-1.295.295", "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": "P53549-1.100.100", "start_pos": 100, "end_pos": 100, "uniprot_canonical_ac": "P53549-1", "length": 437, "uniprot_id": "PRS10_YEAST", "protein_name": "26S proteasome subunit RPT4", "refseq_ac": "NP_014902", "refseq_name": "proteasome regulatory particle base subunit RPT4", "gene_name": "RPT4", "gene_names_uniprotkb": "RPT4; CRL13; PCS1; SUG2", "gene_names_refseq": "CRL13; PCS1; RPT4; SUG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53549", "url": "https://www.uniprot.org/uniprotkb/P53549" } ], "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": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" } ], "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": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549", "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": "NIRDLEKLYDKTENDIKALQ", "down_seq": "IGQLIGEVMKELSEEKYIVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser100" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53549-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "P53549-1", "length": 437, "uniprot_id": "PRS10_YEAST", "protein_name": "26S proteasome subunit RPT4", "refseq_ac": "NP_014902", "refseq_name": "proteasome regulatory particle base subunit RPT4", "gene_name": "RPT4", "gene_names_uniprotkb": "RPT4; CRL13; PCS1; SUG2", "gene_names_refseq": "CRL13; PCS1; RPT4; SUG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53549", "url": "https://www.uniprot.org/uniprotkb/P53549" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005785", "url": "https://www.yeastgenome.org/locus/S000005785", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549", "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": "VYNMTSFEQGEITFDGIGGL", "down_seq": "EQIRELREVIELPLKNPEIF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005785", "url": "https://www.yeastgenome.org/locus/S000005785" }, { "database": "iPTMnet", "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr187" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53549-1.292.292", "start_pos": 292, "end_pos": 292, "uniprot_canonical_ac": "P53549-1", "length": 437, "uniprot_id": "PRS10_YEAST", "protein_name": "26S proteasome subunit RPT4", "refseq_ac": "NP_014902", "refseq_name": "proteasome regulatory particle base subunit RPT4", "gene_name": "RPT4", "gene_names_uniprotkb": "RPT4; CRL13; PCS1; SUG2", "gene_names_refseq": "CRL13; PCS1; RPT4; SUG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53549", "url": "https://www.uniprot.org/uniprotkb/P53549" } ], "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": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" } ], "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": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Co- and post-translational modifications of the 26S proteasome in yeast.", "journal": "Proteomics", "date": "2010-08", "authors": "Kikuchi Julia, Iwafune Yuko, Akiyama Tomoko, Okayama Akiko, Nakamura Hiroki, Arakawa Noriaki, Kimura Yayoi, Hirano Hisashi", "evidence": [ { "database": "iPTMnet", "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" } ], "reference": [ { "type": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005785", "url": "https://www.yeastgenome.org/locus/S000005785", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EHEPCIIFMDEVDAIGGRRF", "down_seq": "EGTSADREIQRTLMELLTQM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005785", "url": "https://www.yeastgenome.org/locus/S000005785" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20486117", "url": "https://glygen.org/publication/PubMed/20486117" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser292" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P53549-1.296.296", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53549-1.296.296", "start_pos": 296, "end_pos": 296, "uniprot_canonical_ac": "P53549-1", "length": 437, "uniprot_id": "PRS10_YEAST", "protein_name": "26S proteasome subunit RPT4", "refseq_ac": "NP_014902", "refseq_name": "proteasome regulatory particle base subunit RPT4", "gene_name": "RPT4", "gene_names_uniprotkb": "RPT4; CRL13; PCS1; SUG2", "gene_names_refseq": "CRL13; PCS1; RPT4; SUG2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53549", "url": "https://www.uniprot.org/uniprotkb/P53549" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005785", "url": "https://www.yeastgenome.org/locus/S000005785", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CIIFMDEVDAIGGRRFSEGT", "down_seq": "ADREIQRTLMELLTQMDGFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005785", "url": "https://www.yeastgenome.org/locus/S000005785" }, { "database": "iPTMnet", "id": "P53549", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53549" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser296" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "296", "end_pos": "296" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53549-1.292.292", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53604-1.110.110", "start_pos": 110, "end_pos": 110, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "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": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "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": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "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": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DMKKQNSRHFSPSFSNRRKA", "down_seq": "SEDPMGTPSSNGNTPEYTPA", "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": "Ser110", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" }, { "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": "Ser110" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53604-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53604-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53604-1.111.111", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53604-1.117.117", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53604-1.119.119", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53604-1.120.120", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53604-1.124.124", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53604-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "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": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MKKQNSRHFSPSFSNRRKAS", "down_seq": "EDPMGTPSSNGNTPEYTPAS", "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": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ], "site_lbl": "Ser111" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53604-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53604-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53604-1.110.110", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53604-1.117.117", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53604-1.119.119", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53604-1.120.120", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53604-1.124.124", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53604-1.131.131", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53604-1.117.117", "start_pos": 117, "end_pos": 117, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "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": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RHFSPSFSNRRKASSEDPMG", "down_seq": "PSSNGNTPEYTPASKSFQDI", "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": "Thr117", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53604-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53604-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53604-1.110.110", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53604-1.111.111", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53604-1.119.119", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53604-1.120.120", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53604-1.124.124", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53604-1.131.131", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53604-1.133.133", "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": "P53604-1.119.119", "start_pos": 119, "end_pos": 119, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "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": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FSPSFSNRRKASSEDPMGTP", "down_seq": "SNGNTPEYTPASKSFQDIYN", "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": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53604-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53604-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53604-1.110.110", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53604-1.111.111", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53604-1.117.117", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53604-1.120.120", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53604-1.124.124", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53604-1.131.131", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53604-1.133.133", "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": "P53604-1.120.120", "start_pos": 120, "end_pos": 120, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "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": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPSFSNRRKASSEDPMGTPS", "down_seq": "NGNTPEYTPASKSFQDIYNN", "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": "Ser120", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53604-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53604-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53604-1.110.110", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53604-1.111.111", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53604-1.117.117", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53604-1.119.119", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53604-1.124.124", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53604-1.131.131", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53604-1.133.133", "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": "P53604-1.124.124", "start_pos": 124, "end_pos": 124, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "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": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SNRRKASSEDPMGTPSSNGN", "down_seq": "PEYTPASKSFQDIYNNHTSS", "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": "Thr124", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53604-1.110.110", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53604-1.111.111", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53604-1.117.117", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53604-1.119.119", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53604-1.120.120", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53604-1.131.131", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53604-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53604-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53604-1.144.144", "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": "P53604-1.131.131", "start_pos": 131, "end_pos": 131, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "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": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SEDPMGTPSSNGNTPEYTPA", "down_seq": "KSFQDIYNNHTSSSSATPRR", "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": "Ser131", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53604-1.111.111", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53604-1.117.117", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53604-1.119.119", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53604-1.120.120", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53604-1.124.124", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53604-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53604-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53604-1.144.144", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53604-1.145.145", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53604-1.146.146", "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": "P53604-1.143.143", "start_pos": 143, "end_pos": 143, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "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": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NTPEYTPASKSFQDIYNNHT", "down_seq": "SSSATPRRASSRPTRPSAGQ", "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": "Ser143", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53604-1.124.124", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53604-1.131.131", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53604-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53604-1.144.144", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53604-1.145.145", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53604-1.146.146", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53604-1.154.154", "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": "P53604-1.144.144", "start_pos": 144, "end_pos": 144, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "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": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TPEYTPASKSFQDIYNNHTS", "down_seq": "SSATPRRASSRPTRPSAGQE", "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": "Ser144", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53604-1.124.124", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53604-1.131.131", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53604-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53604-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53604-1.145.145", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53604-1.146.146", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53604-1.154.154", "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": "P53604-1.145.145", "start_pos": 145, "end_pos": 145, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "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": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PEYTPASKSFQDIYNNHTSS", "down_seq": "SATPRRASSRPTRPSAGQEF", "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": "Ser145", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53604-1.131.131", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53604-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53604-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53604-1.144.144", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53604-1.146.146", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53604-1.154.154", "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": "P53604-1.146.146", "start_pos": 146, "end_pos": 146, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "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": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EYTPASKSFQDIYNNHTSSS", "down_seq": "ATPRRASSRPTRPSAGQEFR", "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": "Ser146", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "P53604", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/P53604" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53604-1.131.131", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53604-1.133.133", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53604-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53604-1.144.144", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53604-1.145.145", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53604-1.154.154", "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": "P53604-1.185.185", "start_pos": 185, "end_pos": 185, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] }, { "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604", "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": "FRASLGRSKTSNSFNTSSTP", "down_seq": "PPPDASSGVMAMKDRLKRRN", "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": "Thr185", "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": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr185" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53604-1.172.172", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53604-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53604-1.177.177", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53604-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" }, { "database": "O-GlcNAc Atlas", "id": "P53604", "url": "https://oglcnac.org/atlas/detail/P53604" } ], "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": "P53604", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604", "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": "P53604", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=P53604" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "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": "P53604-1.100.100", "start_pos": 100, "end_pos": 100, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "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", "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": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "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": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "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": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "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": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "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": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604", "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": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332", "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": "RKILDTQVKHDMKKQNSRHF", "down_seq": "PSFSNRRKASSEDPMGTPSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" }, { "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": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332" }, { "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": "Ser100" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53604-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53604-1.110.110", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53604-1.111.111", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53604-1.117.117", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53604-1.119.119", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53604-1.120.120", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53604-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ILDTQVKHDMKKQNSRHFSP", "down_seq": "FSNRRKASSEDPMGTPSSNG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332" } ], "site_lbl": "Ser102" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53604-1.100.100", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53604-1.110.110", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53604-1.111.111", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53604-1.117.117", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53604-1.119.119", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53604-1.120.120", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53604-1.133.133", "start_pos": 133, "end_pos": 133, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DPMGTPSSNGNTPEYTPASK", "down_seq": "FQDIYNNHTSSSSATPRRAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser133" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53604-1.117.117", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53604-1.119.119", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53604-1.120.120", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53604-1.124.124", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53604-1.131.131", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53604-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53604-1.144.144", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53604-1.145.145", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53604-1.146.146", "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": "P53604-1.154.154", "start_pos": 154, "end_pos": 154, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "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": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604", "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": "FQDIYNNHTSSSSATPRRAS", "down_seq": "RPTRPSAGQEFRASLGRSKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser154" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53604-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53604-1.144.144", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53604-1.145.145", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53604-1.146.146", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53604-1.172.172", "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": "P53604-1.172.172", "start_pos": 172, "end_pos": 172, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASSRPTRPSAGQEFRASLGR", "down_seq": "KTSNSFNTSSTPTPPPDASS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332" } ], "site_lbl": "Ser172" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53604-1.154.154", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53604-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53604-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53604-1.185.185", "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": "P53604-1.175.175", "start_pos": 175, "end_pos": 175, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RPTRPSAGQEFRASLGRSKT", "down_seq": "NSFNTSSTPTPPPDASSGVM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332" } ], "site_lbl": "Ser175" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53604-1.172.172", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53604-1.177.177", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53604-1.185.185", "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": "P53604-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "P53604-1", "length": 210, "uniprot_id": "MSO1_YEAST", "protein_name": "Protein MSO1", "refseq_ac": "NP_014447", "refseq_name": "Mso1p", "gene_name": "MSO1", "gene_names_uniprotkb": "MSO1; N3457", "gene_names_refseq": "MSO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53604", "url": "https://www.uniprot.org/uniprotkb/P53604" }, { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TRPSAGQEFRASLGRSKTSN", "down_seq": "FNTSSTPTPPPDASSGVMAM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53604", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53604" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005332", "url": "https://www.yeastgenome.org/locus/S000005332" } ], "site_lbl": "Ser177" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "119", "end_pos": "119" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "124", "end_pos": "124" }, { "start_pos": "131", "end_pos": "131" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "144", "end_pos": "144" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "185", "end_pos": "185" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "100", "end_pos": "100" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "154", "end_pos": "154" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "185", "end_pos": "185" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53604-1.172.172", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53604-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53604-1.185.185", "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": "P53722-1.124.124", "start_pos": 124, "end_pos": 124, "uniprot_canonical_ac": "P53722-1", "length": 227, "uniprot_id": "ATP23_YEAST", "protein_name": "Mitochondrial inner membrane protease ATP23", "refseq_ac": "NP_014417", "refseq_name": "putative metalloprotease", "gene_name": "ATP23", "gene_names_uniprotkb": "ATP23; N3212", "gene_names_refseq": "ATP23", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Prohibitins interact genetically with Atp23, a novel processing peptidase and chaperone for the F1Fo-ATP synthase.", "journal": "Molecular biology of the cell", "date": "2007-02", "authors": "Osman Christof, Wilmes Claudia, Tatsuta Takashi, Langer Thomas", "evidence": [ { "database": "UniProtKB", "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722" } ], "reference": [ { "type": "PubMed", "id": "17135288", "url": "https://glygen.org/publication/PubMed/17135288" } ] } ], "crossref": [ { "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17135288", "url": "https://glygen.org/publication/PubMed/17135288", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "GILLCQNRLRDKWHLEDTLS", "down_seq": "ELIHYFDDLKWQIDWLNLKH", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "A", "comment": "Abolishes proteolytic processing of ATP6, but still promotes assembly of the ATP6 precursor into the ATPase CF(0) particle.", "evidence": [ { "database": "UniProtKB", "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722" }, { "database": "PubMed", "id": "17135288", "url": "https://glygen.org/publication/PubMed/17135288" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "128", "end_pos": "128" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53722-1.125.125", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53722-1.128.128", "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": "P53722-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "P53722-1", "length": 227, "uniprot_id": "ATP23_YEAST", "protein_name": "Mitochondrial inner membrane protease ATP23", "refseq_ac": "NP_014417", "refseq_name": "putative metalloprotease", "gene_name": "ATP23", "gene_names_uniprotkb": "ATP23; N3212", "gene_names_refseq": "ATP23", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Prohibitins interact genetically with Atp23, a novel processing peptidase and chaperone for the F1Fo-ATP synthase.", "journal": "Molecular biology of the cell", "date": "2007-02", "authors": "Osman Christof, Wilmes Claudia, Tatsuta Takashi, Langer Thomas", "evidence": [ { "database": "UniProtKB", "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722" } ], "reference": [ { "type": "PubMed", "id": "17135288", "url": "https://glygen.org/publication/PubMed/17135288" } ] }, { "title": "The metalloprotease encoded by ATP23 has a dual function in processing and assembly of subunit 6 of mitochondrial ATPase.", "journal": "Molecular biology of the cell", "date": "2007", "authors": "Zeng X, Neupert W, Tzagoloff A", "evidence": [ { "database": "UniProtKB", "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722" } ], "reference": [ { "type": "PubMed", "id": "17135290", "url": "https://glygen.org/publication/PubMed/17135290" } ] } ], "crossref": [ { "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17135288", "url": "https://glygen.org/publication/PubMed/17135288", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17135290", "url": "https://glygen.org/publication/PubMed/17135290", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "ILLCQNRLRDKWHLEDTLSH", "down_seq": "LIHYFDDLKWQIDWLNLKHH", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "Q", "comment": "Abolishes proteolytic processing of ATP6, but still promotes assembly of the ATP6 precursor into the ATPase CF(0) particle.", "evidence": [ { "database": "UniProtKB", "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722" }, { "database": "PubMed", "id": "17135288", "url": "https://glygen.org/publication/PubMed/17135288" }, { "database": "PubMed", "id": "17135290", "url": "https://glygen.org/publication/PubMed/17135290" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "128", "end_pos": "128" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53722-1.124.124", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53722-1.128.128", "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": "P53722-1.128.128", "start_pos": 128, "end_pos": 128, "uniprot_canonical_ac": "P53722-1", "length": 227, "uniprot_id": "ATP23_YEAST", "protein_name": "Mitochondrial inner membrane protease ATP23", "refseq_ac": "NP_014417", "refseq_name": "putative metalloprotease", "gene_name": "ATP23", "gene_names_uniprotkb": "ATP23; N3212", "gene_names_refseq": "ATP23", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Prohibitins interact genetically with Atp23, a novel processing peptidase and chaperone for the F1Fo-ATP synthase.", "journal": "Molecular biology of the cell", "date": "2007-02", "authors": "Osman Christof, Wilmes Claudia, Tatsuta Takashi, Langer Thomas", "evidence": [ { "database": "UniProtKB", "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722" } ], "reference": [ { "type": "PubMed", "id": "17135288", "url": "https://glygen.org/publication/PubMed/17135288" } ] } ], "crossref": [ { "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17135288", "url": "https://glygen.org/publication/PubMed/17135288", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "CQNRLRDKWHLEDTLSHELI", "down_seq": "YFDDLKWQIDWLNLKHHACS", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "A", "comment": "Abolishes proteolytic processing of ATP6, but still promotes assembly of the ATP6 precursor into the ATPase CF(0) particle.", "evidence": [ { "database": "UniProtKB", "id": "P53722", "url": "https://www.uniprot.org/uniprotkb/P53722" }, { "database": "PubMed", "id": "17135288", "url": "https://glygen.org/publication/PubMed/17135288" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "124", "end_pos": "124" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "128", "end_pos": "128" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53722-1.124.124", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53722-1.125.125", "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": "P53731-1.143.143", "start_pos": 143, "end_pos": 143, "uniprot_canonical_ac": "P53731-1", "length": 342, "uniprot_id": "ARPC2_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 2", "refseq_ac": "NP_014433", "refseq_name": "Arc35p", "gene_name": "ARC35", "gene_names_uniprotkb": "ARC35; N3296", "gene_names_refseq": "ARC35; END9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731" } ], "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": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "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": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318", "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": "LKTIILSFPFELAISKFIEL", "down_seq": "QQQPAPVEAEITGGEVAANG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser143" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "upstream", "id": "P53731-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53731-1.155.155", "start_pos": 155, "end_pos": 155, "uniprot_canonical_ac": "P53731-1", "length": 342, "uniprot_id": "ARPC2_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 2", "refseq_ac": "NP_014433", "refseq_name": "Arc35p", "gene_name": "ARC35", "gene_names_uniprotkb": "ARC35; N3296", "gene_names_refseq": "ARC35; END9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731" }, { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "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": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318", "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": "AISKFIELSQQQPAPVEAEI", "down_seq": "GGEVAANGDNTLFTIKYRDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" }, { "database": "SGD", "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr155" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53731-1.143.143", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53731-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P53731-1", "length": 342, "uniprot_id": "ARPC2_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 2", "refseq_ac": "NP_014433", "refseq_name": "Arc35p", "gene_name": "ARC35", "gene_names_uniprotkb": "ARC35; N3296", "gene_names_refseq": "ARC35; END9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PQNLLIQKTLNEAIEALRKG", "down_seq": "PLTMDRIVSDFDYTTYHISN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318" }, { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser26" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P53731-1.40.40", "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": "P53731-1.304.304", "start_pos": 304, "end_pos": 304, "uniprot_canonical_ac": "P53731-1", "length": 342, "uniprot_id": "ARPC2_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 2", "refseq_ac": "NP_014433", "refseq_name": "Arc35p", "gene_name": "ARC35", "gene_names_uniprotkb": "ARC35; N3296", "gene_names_refseq": "ARC35; END9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HYHIKCSKAYMHSRMRFRVD", "down_seq": "FIKVLNRAKVDEDDENDELS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318" }, { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser304" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "P53731-1.324.324", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53731-1.324.324", "start_pos": 324, "end_pos": 324, "uniprot_canonical_ac": "P53731-1", "length": 342, "uniprot_id": "ARPC2_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 2", "refseq_ac": "NP_014433", "refseq_name": "Arc35p", "gene_name": "ARC35", "gene_names_uniprotkb": "ARC35; N3296", "gene_names_refseq": "ARC35; END9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731" }, { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "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": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "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": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "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": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "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": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318", "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": "SFIKVLNRAKVDEDDENDEL", "down_seq": "AEGRQQARRTFTGRKIVY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318" }, { "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": "Ser324" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53731-1.304.304", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53731-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "P53731-1", "length": 342, "uniprot_id": "ARPC2_YEAST", "protein_name": "Actin-related protein 2/3 complex subunit 2", "refseq_ac": "NP_014433", "refseq_name": "Arc35p", "gene_name": "ARC35", "gene_names_uniprotkb": "ARC35; N3296", "gene_names_refseq": "ARC35; END9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53731", "url": "https://www.uniprot.org/uniprotkb/P53731" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731", "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": "EALRKGSPLTMDRIVSDFDY", "down_seq": "TYHISNTAEDKSILLLSVKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005318", "url": "https://www.yeastgenome.org/locus/S000005318" }, { "database": "iPTMnet", "id": "P53731", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53731" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr40" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "143", "end_pos": "143" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "324", "end_pos": "324" }, { "start_pos": "40", "end_pos": "40" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53731-1.26.26", "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": "P53734-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "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": "EEESKPSTHSTVLSRFKQTV", "down_seq": "LQERLGASDIAESKEDEGIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser102" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53734-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53734-1.110.110", "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": "P53734-1.110.110", "start_pos": 110, "end_pos": 110, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "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": "HSTVLSRFKQTVSLQERLGA", "down_seq": "DIAESKEDEGIEDEAASTHQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser110" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53734-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53734-1.127.127", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53734-1.128.128", "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": "P53734-1.127.127", "start_pos": 127, "end_pos": 127, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "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": "LGASDIAESKEDEGIEDEAA", "down_seq": "THQLKQIPQPEFVKNPMNLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "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": "Ser127" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53734-1.110.110", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53734-1.128.128", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53734-1.128.128", "start_pos": 128, "end_pos": 128, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "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": "GASDIAESKEDEGIEDEAAS", "down_seq": "HQLKQIPQPEFVKNPMNLNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr128" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53734-1.110.110", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53734-1.127.127", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53734-1.26.26", "start_pos": 26, "end_pos": 26, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "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": "FDPSQLTAPAASAPEGIVGT", "down_seq": "PPAIVPLKRQATESDNEEYG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" }, { "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": "Thr26" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53734-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53734-1.38.38", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53734-1.298.298", "start_pos": 298, "end_pos": 298, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TLTKLTQGTSLIVSIAKLEN", "down_seq": "LKDEHKKLSNLEPDILITTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" } ], "site_lbl": "Ser298" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "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": "P53734-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "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": "APEGIVGTTPPAIVPLKRQA", "down_seq": "ESDNEEYGSHQDSDESSNSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr38" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53734-1.26.26", "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": "P53734-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "DSDESSNSSSEEDEDRMQVD", "down_seq": "GASEEDSSEVEEEESKPSTH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" } ], "site_lbl": "Tyr70" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53734-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53734-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53734-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53734-1.85.85", "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": "P53734-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "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": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] } ], "crossref": [ { "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734", "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ESSNSSSEEDEDRMQVDYGA", "down_seq": "EEDSSEVEEEESKPSTHSTV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ], "site_lbl": "Ser73" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53734-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53734-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53734-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53734-1.85.85", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53734-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "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": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "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": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] } ], "crossref": [ { "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734", "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSSEEDEDRMQVDYGASEED", "down_seq": "SEVEEEESKPSTHSTVLSRF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53734-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53734-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53734-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53734-1.85.85", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53734-1.78.78", "start_pos": 78, "end_pos": 78, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "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": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] } ], "crossref": [ { "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734", "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSEEDEDRMQVDYGASEEDS", "down_seq": "EVEEEESKPSTHSTVLSRFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ], "site_lbl": "Ser78" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53734-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53734-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53734-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53734-1.85.85", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53734-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RMQVDYGASEEDSSEVEEEE", "down_seq": "KPSTHSTVLSRFKQTVSLQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" } ], "site_lbl": "Ser85" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53734-1.70.70", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53734-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53734-1.77.77", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53734-1.78.78", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53734-1.102.102", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53734-1.9.9", "start_pos": 9, "end_pos": 9, "uniprot_canonical_ac": "P53734-1", "length": 629, "uniprot_id": "DBP6_YEAST", "protein_name": "ATP-dependent RNA helicase DBP6", "refseq_ac": "NP_014436", "refseq_name": "putative ATP-dependent RNA helicase DBP6", "gene_name": "DBP6", "gene_names_uniprotkb": "DBP6; N3302", "gene_names_refseq": "DBP6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53734", "url": "https://www.uniprot.org/uniprotkb/P53734" } ], "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": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734", "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": "MFASRFDP", "down_seq": "QLTAPAASAPEGIVGTTPPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005321", "url": "https://www.yeastgenome.org/locus/S000005321" }, { "database": "iPTMnet", "id": "P53734", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53734" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser9" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "110", "end_pos": "110" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "26", "end_pos": "26" }, { "start_pos": "298", "end_pos": "298" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "77", "end_pos": "77" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P53734-1.26.26", "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": "P53847-1.413.413", "start_pos": 413, "end_pos": 413, "uniprot_canonical_ac": "P53847-1", "length": 754, "uniprot_id": "DSL1_YEAST", "protein_name": "Protein transport protein DSL1", "refseq_ac": "NP_014141", "refseq_name": "Dsl1p", "gene_name": "DSL1", "gene_names_uniprotkb": "DSL1; N0842", "gene_names_refseq": "DSL1; RNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dsl1p, an essential component of the Golgi-endoplasmic reticulum retrieval system in yeast, uses the same sequence motif to interact with different subunits of the COPI vesicle coat.", "journal": "The Journal of biological chemistry", "date": "2003", "authors": "Andag U, Schmitt HD", "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "reference": [ { "type": "PubMed", "id": "14504276", "url": "https://glygen.org/publication/PubMed/14504276" } ] } ], "crossref": [ { "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "14504276", "url": "https://glygen.org/publication/PubMed/14504276", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "NDSDVQNEKELHNAVSKDDD", "down_seq": "NWEVEDDDADAWGDEIDVNI", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "Viable and reduced interaction with RET2, strong Golgi-ER retrograde transport defect. Loss of interaction with RET2; when associated with A-455. Lethal and loss of interactions with RET1 and RET2; when associated with A-425.", "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" }, { "database": "PubMed", "id": "14504276", "url": "https://glygen.org/publication/PubMed/14504276" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "413", "end_pos": "413" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "725", "end_pos": "754" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "32", "end_pos": "32" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "484", "end_pos": "484" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53847-1.395.395", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53847-1.425.425", "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": "P53847-1.425.425", "start_pos": 425, "end_pos": 425, "uniprot_canonical_ac": "P53847-1", "length": 754, "uniprot_id": "DSL1_YEAST", "protein_name": "Protein transport protein DSL1", "refseq_ac": "NP_014141", "refseq_name": "Dsl1p", "gene_name": "DSL1", "gene_names_uniprotkb": "DSL1; N0842", "gene_names_refseq": "DSL1; RNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dsl1p, an essential component of the Golgi-endoplasmic reticulum retrieval system in yeast, uses the same sequence motif to interact with different subunits of the COPI vesicle coat.", "journal": "The Journal of biological chemistry", "date": "2003", "authors": "Andag U, Schmitt HD", "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "reference": [ { "type": "PubMed", "id": "14504276", "url": "https://glygen.org/publication/PubMed/14504276" } ] } ], "crossref": [ { "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "14504276", "url": "https://glygen.org/publication/PubMed/14504276", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "NAVSKDDDWNWEVEDDDADA", "down_seq": "GDEIDVNIDDEEEKTNQEKE", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "Loss of interaction with RET1; when associated with A-413.", "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" }, { "database": "PubMed", "id": "14504276", "url": "https://glygen.org/publication/PubMed/14504276" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "413", "end_pos": "413" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "725", "end_pos": "754" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "32", "end_pos": "32" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "484", "end_pos": "484" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P53847-1.413.413", "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": "P53847-1.455.455", "start_pos": 455, "end_pos": 455, "uniprot_canonical_ac": "P53847-1", "length": 754, "uniprot_id": "DSL1_YEAST", "protein_name": "Protein transport protein DSL1", "refseq_ac": "NP_014141", "refseq_name": "Dsl1p", "gene_name": "DSL1", "gene_names_uniprotkb": "DSL1; N0842", "gene_names_refseq": "DSL1; RNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dsl1p, an essential component of the Golgi-endoplasmic reticulum retrieval system in yeast, uses the same sequence motif to interact with different subunits of the COPI vesicle coat.", "journal": "The Journal of biological chemistry", "date": "2003", "authors": "Andag U, Schmitt HD", "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "reference": [ { "type": "PubMed", "id": "14504276", "url": "https://glygen.org/publication/PubMed/14504276" } ] } ], "crossref": [ { "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "14504276", "url": "https://glygen.org/publication/PubMed/14504276", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "DEEEKTNQEKEKEPEEEENA", "down_seq": "DEAWAIDENIDDASLENGKE", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "Viable and no effect. Lethal and loss of interaction with RET2 and reduced interaction with RET1; when associated with A-413.", "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" }, { "database": "PubMed", "id": "14504276", "url": "https://glygen.org/publication/PubMed/14504276" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "413", "end_pos": "413" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "725", "end_pos": "754" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "32", "end_pos": "32" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "484", "end_pos": "484" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "P53847-1.469.469", "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": "P53847-1.725.754", "start_pos": 725, "end_pos": 754, "uniprot_canonical_ac": "P53847-1", "length": 754, "uniprot_id": "DSL1_YEAST", "protein_name": "Protein transport protein DSL1", "refseq_ac": "NP_014141", "refseq_name": "Dsl1p", "gene_name": "DSL1", "gene_names_uniprotkb": "DSL1; N0842", "gene_names_refseq": "DSL1; RNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The coatomer-interacting protein Dsl1p is required for Golgi-to-endoplasmic reticulum retrieval in yeast.", "journal": "The Journal of biological chemistry", "date": "2001", "authors": "Andag U, Neumann T, Schmitt HD", "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "reference": [ { "type": "PubMed", "id": "11493604", "url": "https://glygen.org/publication/PubMed/11493604" } ] } ], "crossref": [ { "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11493604", "url": "https://glygen.org/publication/PubMed/11493604", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "QWIELLFADTPLRRNAIDDIYEIRGTALDD", "start_aa": "Q", "up_seq": "EIMEMFYNGDFYLFATDELI", "down_seq": "", "mutagenesis": [ { "sequence_org": "QWIELLFADTPLRRNAIDDIYEIRGTALDD", "sequence_mut": "", "comment": "In dsl1-22; strong Golgi-ER retrograde transport defect.", "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" }, { "database": "PubMed", "id": "11493604", "url": "https://glygen.org/publication/PubMed/11493604" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "413", "end_pos": "413" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "725", "end_pos": "754" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "32", "end_pos": "32" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "484", "end_pos": "484" } ] } ], "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": "P53847-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "P53847-1", "length": 754, "uniprot_id": "DSL1_YEAST", "protein_name": "Protein transport protein DSL1", "refseq_ac": "NP_014141", "refseq_name": "Dsl1p", "gene_name": "DSL1", "gene_names_uniprotkb": "DSL1; N0842", "gene_names_refseq": "DSL1; RNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "common_name": "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": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" }, { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "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": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005202", "url": "https://www.yeastgenome.org/locus/S000005202", "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": "IRELLKDPLILKNDSKRSNG", "down_seq": "ELELDSSDLLQREAILANEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005202", "url": "https://www.yeastgenome.org/locus/S000005202" }, { "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": "Ser32" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "413", "end_pos": "413" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "725", "end_pos": "754" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "32", "end_pos": "32" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "484", "end_pos": "484" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P53847-1.361.361", "start_pos": 361, "end_pos": 361, "uniprot_canonical_ac": "P53847-1", "length": 754, "uniprot_id": "DSL1_YEAST", "protein_name": "Protein transport protein DSL1", "refseq_ac": "NP_014141", "refseq_name": "Dsl1p", "gene_name": "DSL1", "gene_names_uniprotkb": "DSL1; N0842", "gene_names_refseq": "DSL1; RNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005202", "url": "https://www.yeastgenome.org/locus/S000005202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QLYYNLLLDKVLESHISEIR", "down_seq": "IFEDPKKSWQNLEVVELTTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005202", "url": "https://www.yeastgenome.org/locus/S000005202" }, { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser361" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "413", "end_pos": "413" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "725", "end_pos": "754" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "32", "end_pos": "32" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "484", "end_pos": "484" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53847-1.395.395", "start_pos": 395, "end_pos": 395, "uniprot_canonical_ac": "P53847-1", "length": 754, "uniprot_id": "DSL1_YEAST", "protein_name": "Protein transport protein DSL1", "refseq_ac": "NP_014141", "refseq_name": "Dsl1p", "gene_name": "DSL1", "gene_names_uniprotkb": "DSL1; N0842", "gene_names_refseq": "DSL1; RNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "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": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "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": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005202", "url": "https://www.yeastgenome.org/locus/S000005202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847", "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": "VVELTTSNTNTMSEKIGKND", "down_seq": "DVQNEKELHNAVSKDDDWNW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005202", "url": "https://www.yeastgenome.org/locus/S000005202" }, { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" }, { "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": "Ser395" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "413", "end_pos": "413" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "725", "end_pos": "754" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "32", "end_pos": "32" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "484", "end_pos": "484" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P53847-1.413.413", "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": "P53847-1.469.469", "start_pos": 469, "end_pos": 469, "uniprot_canonical_ac": "P53847-1", "length": 754, "uniprot_id": "DSL1_YEAST", "protein_name": "Protein transport protein DSL1", "refseq_ac": "NP_014141", "refseq_name": "Dsl1p", "gene_name": "DSL1", "gene_names_uniprotkb": "DSL1; N0842", "gene_names_refseq": "DSL1; RNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "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": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "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": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "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": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "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": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "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": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847", "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": "S000005202", "url": "https://www.yeastgenome.org/locus/S000005202", "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": "EEEENAWDEAWAIDENIDDA", "down_seq": "LENGKEHLKAHDVGSLDKDH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" }, { "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": "S000005202", "url": "https://www.yeastgenome.org/locus/S000005202" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser469" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "413", "end_pos": "413" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "725", "end_pos": "754" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "32", "end_pos": "32" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "484", "end_pos": "484" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P53847-1.455.455", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53847-1.484.484", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P53847-1.484.484", "start_pos": 484, "end_pos": 484, "uniprot_canonical_ac": "P53847-1", "length": 754, "uniprot_id": "DSL1_YEAST", "protein_name": "Protein transport protein DSL1", "refseq_ac": "NP_014141", "refseq_name": "Dsl1p", "gene_name": "DSL1", "gene_names_uniprotkb": "DSL1; N0842", "gene_names_refseq": "DSL1; RNS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53847", "url": "https://www.uniprot.org/uniprotkb/P53847" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005202", "url": "https://www.yeastgenome.org/locus/S000005202", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NIDDASLENGKEHLKAHDVG", "down_seq": "LDKDHIEVTQLPKLFLAISQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005202", "url": "https://www.yeastgenome.org/locus/S000005202" }, { "database": "iPTMnet", "id": "P53847", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53847" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser484" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "413", "end_pos": "413" }, { "start_pos": "425", "end_pos": "425" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "725", "end_pos": "754" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "32", "end_pos": "32" }, { "start_pos": "361", "end_pos": "361" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "469", "end_pos": "469" }, { "start_pos": "484", "end_pos": "484" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53847-1.469.469", "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": "P53865-1.103.103", "start_pos": 103, "end_pos": 103, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "NTSYQESPGLQERPKNEKDK", "down_seq": "PIGTDVHKKDVPNFIHSTPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "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": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "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": "Ser103" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53865-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53865-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53865-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53865-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53865-1.120.120", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53865-1.121.121", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.107.107", "start_pos": 107, "end_pos": 107, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "QESPGLQERPKNEKDKSPIG", "down_seq": "DVHKKDVPNFIHSTPRENSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "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": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr107" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53865-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53865-1.103.103", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53865-1.120.120", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53865-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53865-1.126.126", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.120.120", "start_pos": 120, "end_pos": 120, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "KDKSPIGTDVHKKDVPNFIH", "down_seq": "TPRENSSKHFTRANEQASAQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser120" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53865-1.103.103", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53865-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53865-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53865-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53865-1.138.138", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.121.121", "start_pos": 121, "end_pos": 121, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "DKSPIGTDVHKKDVPNFIHS", "down_seq": "PRENSSKHFTRANEQASAQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "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": "Thr121" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53865-1.103.103", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53865-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53865-1.120.120", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53865-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53865-1.138.138", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.126.126", "start_pos": 126, "end_pos": 126, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "GTDVHKKDVPNFIHSTPREN", "down_seq": "SKHFTRANEQASAQPTDEHT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "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": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser126" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53865-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53865-1.120.120", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53865-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53865-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53865-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53865-1.146.146", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.138.138", "start_pos": 138, "end_pos": 138, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "IHSTPRENSSKHFTRANEQA", "down_seq": "AQPTDEHTSPDISIEDCNGA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser138" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53865-1.120.120", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53865-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53865-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53865-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53865-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53865-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53865-1.151.151", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.142.142", "start_pos": 142, "end_pos": 142, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PRENSSKHFTRANEQASAQP", "down_seq": "DEHTSPDISIEDCNGAKIFL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr142" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53865-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53865-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53865-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53865-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53865-1.151.151", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.146.146", "start_pos": 146, "end_pos": 146, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "SSKHFTRANEQASAQPTDEH", "down_seq": "SPDISIEDCNGAKIFLQNSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "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": "Thr146" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53865-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53865-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53865-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53865-1.147.147", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53865-1.151.151", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.147.147", "start_pos": 147, "end_pos": 147, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "SKHFTRANEQASAQPTDEHT", "down_seq": "PDISIEDCNGAKIFLQNSLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "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": "Ser147" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53865-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53865-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53865-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53865-1.151.151", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.151.151", "start_pos": 151, "end_pos": 151, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "TRANEQASAQPTDEHTSPDI", "down_seq": "IEDCNGAKIFLQNSLSKEDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "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": "Ser151" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53865-1.138.138", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53865-1.142.142", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53865-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53865-1.147.147", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.17.17", "start_pos": 17, "end_pos": 17, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "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": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865", "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MTDFDLMNFPFHERLD", "down_seq": "PVSENGEIKDGEPIPQNWLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "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": "Ser17" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P53865-1.20.20", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.20.20", "start_pos": 20, "end_pos": 20, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "", "down_seq": "ENGEIKDGEPIPQNWLNENH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "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": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "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": "Ser20" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53865-1.17.17", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.238.238", "start_pos": 238, "end_pos": 238, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DNKKKIEEQTVLIENLTKDL", "down_seq": "LNKEMLEKANDTIQTKHTAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser238" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.410.410", "start_pos": 410, "end_pos": 410, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "KIKLERLNERLGSWEKSKEK", "down_seq": "ETSLKDKEKMLADAEKKTNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Tyr410" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53865-1.412.412", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53865-1.413.413", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.412.412", "start_pos": 412, "end_pos": 412, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "KLERLNERLGSWEKSKEKYE", "down_seq": "SLKDKEKMLADAEKKTNTLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Thr412" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53865-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53865-1.413.413", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.413.413", "start_pos": 413, "end_pos": 413, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] } ], "crossref": [ { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "LERLNERLGSWEKSKEKYET", "down_seq": "LKDKEKMLADAEKKTNTLSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ], "site_lbl": "Ser413" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53865-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53865-1.412.412", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "LPLFVNPEDVINCNFSNARD", "down_seq": "YEENKSPSMDQMNYARNTSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser66" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P53865-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53865-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53865-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53865-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53865-1.86.86", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.67.67", "start_pos": 67, "end_pos": 67, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "PLFVNPEDVINCNFSNARDS", "down_seq": "EENKSPSMDQMNYARNTSYQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr67" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P53865-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53865-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53865-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53865-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53865-1.86.86", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "PEDVINCNFSNARDSYEENK", "down_seq": "PSMDQMNYARNTSYQESPGL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "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": "Ser72" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53865-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53865-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53865-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53865-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53865-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53865-1.89.89", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.74.74", "start_pos": 74, "end_pos": 74, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "DVINCNFSNARDSYEENKSP", "down_seq": "MDQMNYARNTSYQESPGLQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P53865-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53865-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53865-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53865-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53865-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53865-1.89.89", "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": "P53865-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "DSYEENKSPSMDQMNYARNT", "down_seq": "YQESPGLQERPKNEKDKSPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "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": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53865-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53865-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53865-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53865-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53865-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53865-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53865-1.103.103", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P53865-1.86.86", "start_pos": 86, "end_pos": 86, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "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": "SYEENKSPSMDQMNYARNTS", "down_seq": "QESPGLQERPKNEKDKSPIG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr86" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53865-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P53865-1.67.67", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53865-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53865-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53865-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53865-1.89.89", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53865-1.103.103", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53865-1.89.89", "start_pos": 89, "end_pos": 89, "uniprot_canonical_ac": "P53865-1", "length": 581, "uniprot_id": "CNM67_YEAST", "protein_name": "Chaotic nuclear migration protein 67", "refseq_ac": "NP_014174", "refseq_name": "Cnm67p", "gene_name": "CNM67", "gene_names_uniprotkb": "CNM67; N1264", "gene_names_refseq": "CNM67", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "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": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169", "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": "ENKSPSMDQMNYARNTSYQE", "down_seq": "PGLQERPKNEKDKSPIGTDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53865", "url": "https://www.uniprot.org/uniprotkb/P53865" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53865", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53865" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000005169", "url": "https://www.yeastgenome.org/locus/S000005169" }, { "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": "Ser89" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "103", "end_pos": "103" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "120", "end_pos": "120" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "151", "end_pos": "151" }, { "start_pos": "17", "end_pos": "17" }, { "start_pos": "20", "end_pos": "20" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "85", "end_pos": "85" }, { "start_pos": "86", "end_pos": "86" }, { "start_pos": "89", "end_pos": "89" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P53865-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53865-1.74.74", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53865-1.85.85", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53865-1.86.86", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53865-1.103.103", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53865-1.107.107", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53871-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "P53871-1", "length": 357, "uniprot_id": "DUG3_YEAST", "protein_name": "Probable glutamine amidotransferase DUG3", "refseq_ac": "NP_014208", "refseq_name": "glutamine amidotransferase subunit DUG3", "gene_name": "DUG3", "gene_names_uniprotkb": "DUG3; N1410", "gene_names_refseq": "DUG3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53871", "url": "https://www.uniprot.org/uniprotkb/P53871" } ], "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": "AYYPLDTELSEDGPCLFKAI", "down_seq": "PAWNNQNLSTLAEKTKSDLV", "glycosylation": [ { "glytoucan_ac": "", "type": "O-linked", "subtype": "", "prediction_tool_list": [ { "label": "isoglyp", "url": "https://github.com/jonmohl/ISOGlyP" } ], "site_category": "predicted", "site_category_dict": { "predicted": true }, "site_seq": "", "relation": "attached", "comment": "", "icn3d_view": {}, "start_aa": "Thr", "end_aa": "Thr", "residue": "Thr", "site_lbl": "Thr71", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "71", "end_pos": "71" } ] } ], "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": "P53879-1.91.91", "start_pos": 91, "end_pos": 91, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Rho5p downregulates the yeast cell integrity pathway.", "journal": "Journal of cell science", "date": "2002-08-01", "authors": "Schmitz Hans-Peter, Huppert Stefanie, Lorberg Anja, Heinisch J\u00fcrgen J", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "reference": [ { "type": "PubMed", "id": "12118069", "url": "https://glygen.org/publication/PubMed/12118069" } ] } ], "crossref": [ { "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12118069", "url": "https://glygen.org/publication/PubMed/12118069", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Q", "start_aa": "Q", "up_seq": "SSSPSTDRKLYKINLWDTAG", "down_seq": "EDYDRLRPLCYPQTDIFLIC", "mutagenesis": [ { "sequence_org": "Q", "sequence_mut": "H", "comment": "Cells sensitive to calcofluor, caffeine and Congo red.", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "PubMed", "id": "12118069", "url": "https://glygen.org/publication/PubMed/12118069" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53879-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P53879-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53879-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53879-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "P53879-1.76.76", "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": "P53879-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "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": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879", "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QAGVREVFEQAVRYAIYEPE", "down_seq": "PNQKSANHTLTDELTTATTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "27821475", "url": "https://glygen.org/publication/PubMed/27821475" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser223" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P53879-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53879-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53879-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53879-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53879-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53879-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53879-1.242.242", "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": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.228.228", "start_pos": 228, "end_pos": 228, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "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": "EVFEQAVRYAIYEPESPNQK", "down_seq": "ANHTLTDELTTATTNTNGDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser228" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53879-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53879-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53879-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53879-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P53879-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53879-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P53879-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53879-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.232.232", "start_pos": 232, "end_pos": 232, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "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": "QAVRYAIYEPESPNQKSANH", "down_seq": "LTDELTTATTNTNGDKNIRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "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": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53879-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53879-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53879-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53879-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53879-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53879-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53879-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P53879-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.234.234", "start_pos": 234, "end_pos": 234, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "VRYAIYEPESPNQKSANHTL", "down_seq": "DELTTATTNTNGDKNIREQK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "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": "Thr234" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P53879-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53879-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53879-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53879-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53879-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53879-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53879-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53879-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.238.238", "start_pos": 238, "end_pos": 238, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "IYEPESPNQKSANHTLTDEL", "down_seq": "TATTNTNGDKNIREQKQQPH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr238" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53879-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53879-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53879-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53879-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53879-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53879-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53879-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53879-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.239.239", "start_pos": 239, "end_pos": 239, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "YEPESPNQKSANHTLTDELT", "down_seq": "ATTNTNGDKNIREQKQQPHH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr239" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53879-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P53879-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53879-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53879-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53879-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53879-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53879-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53879-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.241.241", "start_pos": 241, "end_pos": 241, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Rho5p is involved in mediating the osmotic stress response in Saccharomyces cerevisiae, and its activity is regulated via Msi1p and Npr1p by phosphorylation and ubiquitination.", "journal": "Eukaryotic cell", "date": "2008-09", "authors": "Annan Robert B, Wu Cunle, Waller Daniel D, Whiteway Malcolm, Thomas David Y", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "18621925", "url": "https://glygen.org/publication/PubMed/18621925" } ] }, { "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18621925", "url": "https://glygen.org/publication/PubMed/18621925", "database": "PubMed", "categories": [ "Other" ] }, { "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PESPNQKSANHTLTDELTTA", "down_seq": "TNTNGDKNIREQKQQPHHNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "PubMed", "id": "18621925", "url": "https://glygen.org/publication/PubMed/18621925" }, { "database": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ], "site_lbl": "Thr241" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P53879-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P53879-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53879-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53879-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53879-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53879-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53879-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53879-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] }, { "title": "Rho5p is involved in mediating the osmotic stress response in Saccharomyces cerevisiae, and its activity is regulated via Msi1p and Npr1p by phosphorylation and ubiquitination.", "journal": "Eukaryotic cell", "date": "2008-09", "authors": "Annan Robert B, Wu Cunle, Waller Daniel D, Whiteway Malcolm, Thomas David Y", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "18621925", "url": "https://glygen.org/publication/PubMed/18621925" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "34965436", "url": "https://glygen.org/publication/PubMed/34965436" } ] } ], "crossref": [ { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18621925", "url": "https://glygen.org/publication/PubMed/18621925", "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": "T", "start_aa": "T", "up_seq": "ESPNQKSANHTLTDELTTAT", "down_seq": "NTNGDKNIREQKQQPHHNNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "PubMed", "id": "18621925", "url": "https://glygen.org/publication/PubMed/18621925" }, { "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": "Thr242" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53879-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P53879-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53879-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53879-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53879-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53879-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53879-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53879-1.244.244", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53879-1.262.262", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.244.244", "start_pos": 244, "end_pos": 244, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "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": "PNQKSANHTLTDELTTATTN", "down_seq": "NGDKNIREQKQQPHHNNSTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "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": "Thr244" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53879-1.228.228", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P53879-1.232.232", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53879-1.234.234", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53879-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53879-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53879-1.241.241", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53879-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53879-1.262.262", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.262.262", "start_pos": 262, "end_pos": 262, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "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": "TNTNGDKNIREQKQQPHHNN", "down_seq": "TDSTLPKGSLQQEKEALNIK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser262" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P53879-1.242.242", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P53879-1.244.244", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53879-1.271.271", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.271.271", "start_pos": 271, "end_pos": 271, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "REQKQQPHHNNSTDSTLPKG", "down_seq": "LQQEKEALNIKPTKKGQKDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser271" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53879-1.262.262", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.305.305", "start_pos": 305, "end_pos": 305, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "KKGQKDKIHEQSKSKGSKIA", "down_seq": "NNHHNKQAKPKTRNDKKKKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser305" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "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": "IPNGTASSPLELDNGNDKRG", "down_seq": "LSSASSSPSTDRKLYKINLW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser66" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53879-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53879-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53879-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53879-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53879-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53879-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53879-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.68.68", "start_pos": 68, "end_pos": 68, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "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": "NGTASSPLELDNGNDKRGSL", "down_seq": "SASSSPSTDRKLYKINLWDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser68" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53879-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53879-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53879-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53879-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53879-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53879-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P53879-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.69.69", "start_pos": 69, "end_pos": 69, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "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": "GTASSPLELDNGNDKRGSLS", "down_seq": "ASSSPSTDRKLYKINLWDTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "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": "Ser69" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53879-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53879-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53879-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53879-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53879-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53879-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P53879-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53879-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "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": "ASSPLELDNGNDKRGSLSSA", "down_seq": "SSPSTDRKLYKINLWDTAGQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser71" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53879-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53879-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53879-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53879-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53879-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53879-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53879-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P53879-1.91.91", "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": "P53879-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "SSPLELDNGNDKRGSLSSAS", "down_seq": "SPSTDRKLYKINLWDTAGQE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "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": "Ser72" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53879-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53879-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53879-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53879-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53879-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53879-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53879-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53879-1.91.91", "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": "P53879-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "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": "SPLELDNGNDKRGSLSSASS", "down_seq": "PSTDRKLYKINLWDTAGQED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "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": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P53879-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53879-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53879-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53879-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53879-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53879-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53879-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P53879-1.91.91", "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": "P53879-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "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": "LELDNGNDKRGSLSSASSSP", "down_seq": "TDRKLYKINLWDTAGQEDYD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "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": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "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": "Ser75" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53879-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53879-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53879-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53879-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53879-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53879-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53879-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53879-1.91.91", "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": "P53879-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "P53879-1", "length": 331, "uniprot_id": "RHO5_YEAST", "protein_name": "GTP-binding protein RHO5", "refseq_ac": "NP_014219", "refseq_name": "Rho family GTPase RHO5", "gene_name": "RHO5", "gene_names_uniprotkb": "RHO5; N1644", "gene_names_refseq": "RHO5; YNS0", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53879", "url": "https://www.uniprot.org/uniprotkb/P53879" } ], "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": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879", "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": "ELDNGNDKRGSLSSASSSPS", "down_seq": "DRKLYKINLWDTAGQEDYDR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005124", "url": "https://www.yeastgenome.org/locus/S000005124" }, { "database": "iPTMnet", "id": "P53879", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53879" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr76" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "91", "end_pos": "91" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "223", "end_pos": "223" }, { "start_pos": "228", "end_pos": "228" }, { "start_pos": "232", "end_pos": "232" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "241", "end_pos": "241" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "262", "end_pos": "262" }, { "start_pos": "271", "end_pos": "271" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "68", "end_pos": "68" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "76", "end_pos": "76" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53879-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P53879-1.68.68", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P53879-1.69.69", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53879-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53879-1.72.72", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53879-1.73.73", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53879-1.75.75", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53879-1.91.91", "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": "P53883-1.101.101", "start_pos": 101, "end_pos": 101, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "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": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "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": "KEDAEKKKSGASEKDAQGEE", "down_seq": "TINTPTGDESGEVVKKKKKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "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": "Ser101" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P53883-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53883-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53883-1.105.105", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53883-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53883-1.111.111", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "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": "EDAEKKKSGASEKDAQGEES", "down_seq": "INTPTGDESGEVVKKKKKDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr102" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53883-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53883-1.101.101", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53883-1.105.105", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53883-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53883-1.111.111", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.105.105", "start_pos": 105, "end_pos": 105, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "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": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883", "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "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": "EKKKSGASEKDAQGEESTIN", "down_seq": "PTGDESGEVVKKKKKDENKY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "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": "Thr105" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P53883-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53883-1.101.101", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53883-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53883-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53883-1.111.111", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.107.107", "start_pos": 107, "end_pos": 107, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "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": "KKSGASEKDAQGEESTINTP", "down_seq": "GDESGEVVKKKKKDENKYGV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "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": "Thr107" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P53883-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53883-1.101.101", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53883-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53883-1.105.105", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53883-1.111.111", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "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": "ASEKDAQGEESTINTPTGDE", "down_seq": "GEVVKKKKKDENKYGVWIGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "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": "Ser111" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53883-1.92.92", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P53883-1.101.101", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P53883-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53883-1.105.105", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53883-1.107.107", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "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": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "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": "M", "down_seq": "ETELSKEDAVTKKDNEEQVK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "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": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53883-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53883-1.7.7", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.331.331", "start_pos": 331, "end_pos": 331, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "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": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RMEYGEDRSKRQVRKKVENV", "down_seq": "RNNSSSFDISNNKGYDRAGQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "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": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "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": "Ser331" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "P53883-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53883-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53883-1.337.337", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53883-1.341.341", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "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": "GEDRSKRQVRKKVENVSRNN", "down_seq": "SSFDISNNKGYDRAGQDNGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "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": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "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": "Ser335" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "P53883-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53883-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P53883-1.337.337", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P53883-1.341.341", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.336.336", "start_pos": 336, "end_pos": 336, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "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": "EDRSKRQVRKKVENVSRNNS", "down_seq": "SFDISNNKGYDRAGQDNGSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser336" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53883-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53883-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53883-1.337.337", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P53883-1.341.341", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.337.337", "start_pos": 337, "end_pos": 337, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "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": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "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": "DRSKRQVRKKVENVSRNNSS", "down_seq": "FDISNNKGYDRAGQDNGSKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "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": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "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": "Ser337" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P53883-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P53883-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53883-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P53883-1.341.341", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.341.341", "start_pos": 341, "end_pos": 341, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "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": "RQVRKKVENVSRNNSSSFDI", "down_seq": "NNKGYDRAGQDNGSKPEYKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "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": "Ser341" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P53883-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P53883-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P53883-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P53883-1.337.337", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.376.376", "start_pos": 376, "end_pos": 376, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] } ], "crossref": [ { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KPEYKRSNANRRPPVDSNNR", "down_seq": "KSSVALATAQRGSAAIVPSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ], "site_lbl": "Thr376" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P53883-1.378.378", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53883-1.379.379", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53883-1.395.395", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.378.378", "start_pos": 378, "end_pos": 378, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EYKRSNANRRPPVDSNNRTK", "down_seq": "SVALATAQRGSAAIVPSQGK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser378" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53883-1.376.376", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P53883-1.379.379", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P53883-1.395.395", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P53883-1.379.379", "start_pos": 379, "end_pos": 379, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "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": "YKRSNANRRPPVDSNNRTKS", "down_seq": "VALATAQRGSAAIVPSQGKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser379" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P53883-1.376.376", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P53883-1.378.378", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P53883-1.395.395", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.395.395", "start_pos": 395, "end_pos": 395, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "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": "RTKSSVALATAQRGSAAIVP", "down_seq": "QGKKVKFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser395" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53883-1.376.376", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P53883-1.378.378", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P53883-1.379.379", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "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": "MSE", "down_seq": "ELSKEDAVTKKDNEEQVKKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr4" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P53883-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P53883-1.7.7", "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": "P53883-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LRRGKVTLEELNAKYNIDPK", "down_seq": "IEEYKEDAEKKKSGASEKDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser76" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "upstream", "id": "P53883-1.92.92", "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": "P53883-1.7.7", "start_pos": 7, "end_pos": 7, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "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": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "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": "MSETEL", "down_seq": "KEDAVTKKDNEEQVKKALLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser7" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P53883-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P53883-1.4.4", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53883-1.92.92", "start_pos": 92, "end_pos": 92, "uniprot_canonical_ac": "P53883-1", "length": 403, "uniprot_id": "NOP13_YEAST", "protein_name": "Nucleolar protein 13", "refseq_ac": "NP_014224", "refseq_name": "Nop13p", "gene_name": "NOP13", "gene_names_uniprotkb": "NOP13; N1665", "gene_names_refseq": "NOP13", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53883", "url": "https://www.uniprot.org/uniprotkb/P53883" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IDPKSIEEYKEDAEKKKSGA", "down_seq": "EKDAQGEESTINTPTGDESG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005119", "url": "https://www.yeastgenome.org/locus/S000005119" }, { "database": "iPTMnet", "id": "P53883", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53883" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser92" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "101", "end_pos": "101" }, { "start_pos": "102", "end_pos": "102" }, { "start_pos": "105", "end_pos": "105" }, { "start_pos": "107", "end_pos": "107" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "341", "end_pos": "341" }, { "start_pos": "376", "end_pos": "376" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "7", "end_pos": "7" }, { "start_pos": "92", "end_pos": "92" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P53883-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P53883-1.101.101", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P53883-1.102.102", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P53883-1.105.105", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P53883-1.107.107", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P53883-1.111.111", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53919-1.255.255", "start_pos": 255, "end_pos": 255, "uniprot_canonical_ac": "P53919-1", "length": 492, "uniprot_id": "NAF1_YEAST", "protein_name": "H/ACA ribonucleoprotein complex non-core subunit NAF1", "refseq_ac": "NP_014275", "refseq_name": "RNA-binding snoRNP assembly protein", "gene_name": "NAF1", "gene_names_uniprotkb": "NAF1; N1888", "gene_names_refseq": "NAF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53919", "url": "https://www.uniprot.org/uniprotkb/P53919" } ], "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": "P53919", "url": "https://www.uniprot.org/uniprotkb/P53919" }, { "database": "iPTMnet", "id": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" } ], "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": "P53919", "url": "https://www.uniprot.org/uniprotkb/P53919" }, { "database": "iPTMnet", "id": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" } ], "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": "P53919", "url": "https://www.uniprot.org/uniprotkb/P53919" }, { "database": "iPTMnet", "id": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" } ], "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": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" } ], "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": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" } ], "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": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" } ], "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": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P53919", "url": "https://www.uniprot.org/uniprotkb/P53919", "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": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919", "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": "S000005068", "url": "https://www.yeastgenome.org/locus/S000005068", "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": "KGTDASNGYDEELPEEEQEF", "down_seq": "DDEKEALFKKMKKQQRQRKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P53919", "url": "https://www.uniprot.org/uniprotkb/P53919" }, { "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": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000005068", "url": "https://www.yeastgenome.org/locus/S000005068" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser255" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "255", "end_pos": "255" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "334", "end_pos": "334" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P53919-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P53919-1", "length": 492, "uniprot_id": "NAF1_YEAST", "protein_name": "H/ACA ribonucleoprotein complex non-core subunit NAF1", "refseq_ac": "NP_014275", "refseq_name": "RNA-binding snoRNP assembly protein", "gene_name": "NAF1", "gene_names_uniprotkb": "NAF1; N1888", "gene_names_refseq": "NAF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53919", "url": "https://www.uniprot.org/uniprotkb/P53919" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005068", "url": "https://www.yeastgenome.org/locus/S000005068", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919", "database": "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": "DDLFSKALENPDQDLNVELP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005068", "url": "https://www.yeastgenome.org/locus/S000005068" }, { "database": "iPTMnet", "id": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "255", "end_pos": "255" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "334", "end_pos": "334" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53919-1.334.334", "start_pos": 334, "end_pos": 334, "uniprot_canonical_ac": "P53919-1", "length": 492, "uniprot_id": "NAF1_YEAST", "protein_name": "H/ACA ribonucleoprotein complex non-core subunit NAF1", "refseq_ac": "NP_014275", "refseq_name": "RNA-binding snoRNP assembly protein", "gene_name": "NAF1", "gene_names_uniprotkb": "NAF1; N1888", "gene_names_refseq": "NAF1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53919", "url": "https://www.uniprot.org/uniprotkb/P53919" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005068", "url": "https://www.yeastgenome.org/locus/S000005068", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "APMQHGYKSRNARENIKRES", "down_seq": "ATSNRNGSSPVPITQHHQQQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005068", "url": "https://www.yeastgenome.org/locus/S000005068" }, { "database": "iPTMnet", "id": "P53919", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53919" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser334" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "255", "end_pos": "255" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "334", "end_pos": "334" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53930-1.13.13", "start_pos": 13, "end_pos": 13, "uniprot_canonical_ac": "P53930-1", "length": 226, "uniprot_id": "AF9_YEAST", "protein_name": "Protein AF-9 homolog", "refseq_ac": "NP_014292", "refseq_name": "YEATS domain-containing protein YAF9", "gene_name": "YAF9", "gene_names_uniprotkb": "YAF9; N1966", "gene_names_refseq": "YAF9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53930", "url": "https://www.uniprot.org/uniprotkb/P53930" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P53930", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53930" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005051", "url": "https://www.yeastgenome.org/locus/S000005051", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P53930", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53930", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MAPTISKRIKTL", "down_seq": "VSRPIIYGNTAKKMGSVKPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005051", "url": "https://www.yeastgenome.org/locus/S000005051" }, { "database": "iPTMnet", "id": "P53930", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P53930" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser13" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53941-1.119.119", "start_pos": 119, "end_pos": 119, "uniprot_canonical_ac": "P53941-1", "length": 290, "uniprot_id": "IMP4_YEAST", "protein_name": "U3 small nucleolar ribonucleoprotein protein IMP4", "refseq_ac": "NP_014324", "refseq_name": "snoRNA-binding rRNA-processing protein IMP4", "gene_name": "IMP4", "gene_names_uniprotkb": "IMP4; N2353", "gene_names_refseq": "IMP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Imp3p and Imp4p mediate formation of essential U3-precursor rRNA (pre-rRNA) duplexes, possibly to recruit the small subunit processome to the pre-rRNA.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2004-10-26", "authors": "G\u00e9rczei T\u00edmea, Correll Carl C", "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" } ], "reference": [ { "type": "PubMed", "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263" } ] } ], "crossref": [ { "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "RLSQFAKEIKLLFPNAVRLN", "down_seq": "GNYVMPNLVDACKKSGTTDL", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "No effect on RNA binding.", "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" }, { "database": "PubMed", "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "253", "end_pos": "253" } ] } ], "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": "P53941-1.201.201", "start_pos": 201, "end_pos": 201, "uniprot_canonical_ac": "P53941-1", "length": 290, "uniprot_id": "IMP4_YEAST", "protein_name": "U3 small nucleolar ribonucleoprotein protein IMP4", "refseq_ac": "NP_014324", "refseq_name": "snoRNA-binding rRNA-processing protein IMP4", "gene_name": "IMP4", "gene_names_uniprotkb": "IMP4; N2353", "gene_names_refseq": "IMP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Imp3p and Imp4p mediate formation of essential U3-precursor rRNA (pre-rRNA) duplexes, possibly to recruit the small subunit processome to the pre-rRNA.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2004-10-26", "authors": "G\u00e9rczei T\u00edmea, Correll Carl C", "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" } ], "reference": [ { "type": "PubMed", "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263" } ] } ], "crossref": [ { "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "NQSEVNPHLIFDNFTTALGK", "down_seq": "VVCILKHLFNAGPKKDSERV", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "No effect on RNA binding.", "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" }, { "database": "PubMed", "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "253", "end_pos": "253" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P53941-1.220.220", "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": "P53941-1.220.220", "start_pos": 220, "end_pos": 220, "uniprot_canonical_ac": "P53941-1", "length": 290, "uniprot_id": "IMP4_YEAST", "protein_name": "U3 small nucleolar ribonucleoprotein protein IMP4", "refseq_ac": "NP_014324", "refseq_name": "snoRNA-binding rRNA-processing protein IMP4", "gene_name": "IMP4", "gene_names_uniprotkb": "IMP4; N2353", "gene_names_refseq": "IMP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Imp3p and Imp4p mediate formation of essential U3-precursor rRNA (pre-rRNA) duplexes, possibly to recruit the small subunit processome to the pre-rRNA.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2004-10-26", "authors": "G\u00e9rczei T\u00edmea, Correll Carl C", "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" } ], "reference": [ { "type": "PubMed", "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263" } ] } ], "crossref": [ { "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "KRVVCILKHLFNAGPKKDSE", "down_seq": "VITFANRGDFISVRQHVYVR", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Loss of RNA binding.", "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" }, { "database": "PubMed", "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "253", "end_pos": "253" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P53941-1.201.201", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P53941-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "P53941-1", "length": 290, "uniprot_id": "IMP4_YEAST", "protein_name": "U3 small nucleolar ribonucleoprotein protein IMP4", "refseq_ac": "NP_014324", "refseq_name": "snoRNA-binding rRNA-processing protein IMP4", "gene_name": "IMP4", "gene_names_uniprotkb": "IMP4; N2353", "gene_names_refseq": "IMP4", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Imp3p and Imp4p mediate formation of essential U3-precursor rRNA (pre-rRNA) duplexes, possibly to recruit the small subunit processome to the pre-rRNA.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2004-10-26", "authors": "G\u00e9rczei T\u00edmea, Correll Carl C", "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" } ], "reference": [ { "type": "PubMed", "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263" } ] } ], "crossref": [ { "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "VRQHVYVRTREGVEIAEVGP", "down_seq": "FEMRLFELRLGTLENKDADV", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Loss of RNA binding.", "evidence": [ { "database": "UniProtKB", "id": "P53941", "url": "https://www.uniprot.org/uniprotkb/P53941" }, { "database": "PubMed", "id": "15489263", "url": "https://glygen.org/publication/PubMed/15489263" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "119", "end_pos": "119" }, { "start_pos": "201", "end_pos": "201" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "253", "end_pos": "253" } ] } ], "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": "P54113-1.11.11", "start_pos": 11, "end_pos": 11, "uniprot_canonical_ac": "P54113-1", "length": 591, "uniprot_id": "PUR91_YEAST", "protein_name": "Bifunctional purine biosynthesis protein ADE16", "refseq_ac": "NP_013128", "refseq_name": "bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase ADE16", "gene_name": "ADE16", "gene_names_uniprotkb": "ADE16", "gene_names_refseq": "ADE16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54113", "url": "https://www.uniprot.org/uniprotkb/P54113" } ], "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": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" } ], "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": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" } ], "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": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113", "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": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018", "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": "MGKYTKTAIL", "down_seq": "VYDKTGLLDLAKGLVENNVR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" }, { "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": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser11" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54113-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "P54113-1", "length": 591, "uniprot_id": "PUR91_YEAST", "protein_name": "Bifunctional purine biosynthesis protein ADE16", "refseq_ac": "NP_013128", "refseq_name": "bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase ADE16", "gene_name": "ADE16", "gene_names_uniprotkb": "ADE16", "gene_names_refseq": "ADE16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54113", "url": "https://www.uniprot.org/uniprotkb/P54113" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KTGLLDLAKGLVENNVRILA", "down_seq": "GGTANMVREAGFPVDDVSSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018" }, { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser35" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "P54113-1.54.54", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54113-1.487.487", "start_pos": 487, "end_pos": 487, "uniprot_canonical_ac": "P54113-1", "length": 591, "uniprot_id": "PUR91_YEAST", "protein_name": "Bifunctional purine biosynthesis protein ADE16", "refseq_ac": "NP_013128", "refseq_name": "bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase ADE16", "gene_name": "ADE16", "gene_names_uniprotkb": "ADE16", "gene_names_refseq": "ADE16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54113", "url": "https://www.uniprot.org/uniprotkb/P54113" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113", "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": "RQHPKVLNMKWAKGIKRADK", "down_seq": "NAIDLFVTGQRIEGPEKVDY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018" }, { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser487" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54113-1.54.54", "start_pos": 54, "end_pos": 54, "uniprot_canonical_ac": "P54113-1", "length": 591, "uniprot_id": "PUR91_YEAST", "protein_name": "Bifunctional purine biosynthesis protein ADE16", "refseq_ac": "NP_013128", "refseq_name": "bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase ADE16", "gene_name": "ADE16", "gene_names_uniprotkb": "ADE16", "gene_names_refseq": "ADE16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54113", "url": "https://www.uniprot.org/uniprotkb/P54113" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113", "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": "ASGGTANMVREAGFPVDDVS", "down_seq": "ITHAPEMLGGRVKTLHPAVH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018" }, { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser54" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P54113-1.35.35", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P54113-1.56.56", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54113-1.564.564", "start_pos": 564, "end_pos": 564, "uniprot_canonical_ac": "P54113-1", "length": 591, "uniprot_id": "PUR91_YEAST", "protein_name": "Bifunctional purine biosynthesis protein ADE16", "refseq_ac": "NP_013128", "refseq_name": "bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase ADE16", "gene_name": "ADE16", "gene_names_uniprotkb": "ADE16", "gene_names_refseq": "ADE16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54113", "url": "https://www.uniprot.org/uniprotkb/P54113" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PDNVYRAVQSGVKFITAPSG", "down_seq": "VMDKVVFQAADSFDIVYVEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018" }, { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser564" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54113-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "P54113-1", "length": 591, "uniprot_id": "PUR91_YEAST", "protein_name": "Bifunctional purine biosynthesis protein ADE16", "refseq_ac": "NP_013128", "refseq_name": "bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase ADE16", "gene_name": "ADE16", "gene_names_uniprotkb": "ADE16", "gene_names_refseq": "ADE16", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54113", "url": "https://www.uniprot.org/uniprotkb/P54113" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113", "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": "GGTANMVREAGFPVDDVSSI", "down_seq": "HAPEMLGGRVKTLHPAVHAG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004018", "url": "https://www.yeastgenome.org/locus/S000004018" }, { "database": "iPTMnet", "id": "P54113", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54113" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr56" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "11", "end_pos": "11" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P54113-1.54.54", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.580.580", "start_pos": 580, "end_pos": 580, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Yeast spindle pole body duplication gene MPS1 encodes an essential dual specificity protein kinase.", "journal": "The EMBO journal", "date": "1995-04-18", "authors": "Lauz\u00e9 E, Stoelcker B, Luca F C, Weiss E, Schutz A R, Winey M", "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "reference": [ { "type": "PubMed", "id": "7737118", "url": "https://glygen.org/publication/PubMed/7737118" } ] } ], "crossref": [ { "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7737118", "url": "https://glygen.org/publication/PubMed/7737118", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "VHSDLKPANFVLVKGILKII", "down_seq": "FGIANAVPEHTVNIYRETQI", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Loss of activity.", "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" }, { "database": "PubMed", "id": "7737118", "url": "https://glygen.org/publication/PubMed/7737118" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P54199-1.591.591", "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": "P54199-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "STLFGRYLRNNHQTSMTTMN", "down_seq": "SDIEINVGNSLDKSFERIRN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr115" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P54199-1.116.116", "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": "P54199-1.116.116", "start_pos": 116, "end_pos": 116, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TLFGRYLRNNHQTSMTTMNT", "down_seq": "DIEINVGNSLDKSFERIRNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser116" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P54199-1.115.115", "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": "P54199-1.145.145", "start_pos": 145, "end_pos": 145, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SLDKSFERIRNLRQNMKEDI", "down_seq": "AKYAERRSKRFLISNRTTKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr145" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P54199-1.163.163", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.163.163", "start_pos": 163, "end_pos": 163, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "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": "DITAKYAERRSKRFLISNRT", "down_seq": "KLGPAKRAMTLTNIFDEDVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr163" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P54199-1.145.145", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P54199-1.173.173", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P54199-1.175.175", "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": "P54199-1.173.173", "start_pos": 173, "end_pos": 173, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "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": "SKRFLISNRTTKLGPAKRAM", "down_seq": "LTNIFDEDVPNSPNQPINAR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr173" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P54199-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P54199-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P54199-1.185.185", "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": "P54199-1.175.175", "start_pos": 175, "end_pos": 175, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RFLISNRTTKLGPAKRAMTL", "down_seq": "NIFDEDVPNSPNQPINARET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr175" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P54199-1.163.163", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P54199-1.173.173", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P54199-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P54199-1.195.195", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.185.185", "start_pos": 185, "end_pos": 185, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LGPAKRAMTLTNIFDEDVPN", "down_seq": "PNQPINARETVELPLEDSHQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser185" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P54199-1.173.173", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P54199-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P54199-1.195.195", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P54199-1.203.203", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.195.195", "start_pos": 195, "end_pos": 195, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "TNIFDEDVPNSPNQPINARE", "down_seq": "VELPLEDSHQTNFKETKRNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr195" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P54199-1.175.175", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P54199-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P54199-1.203.203", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.203.203", "start_pos": 203, "end_pos": 203, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "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": "PNSPNQPINARETVELPLED", "down_seq": "HQTNFKETKRNTDYDSIDFG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser203" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P54199-1.185.185", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P54199-1.195.195", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.22.22", "start_pos": 22, "end_pos": 22, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "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": "STNSFHDYVDLKSRTNTRQF", "down_seq": "DDEEFTTPPKLSNFGSALLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser22" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P54199-1.5.5", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P54199-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P54199-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P54199-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P54199-1.42.42", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.238.238", "start_pos": 238, "end_pos": 238, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DSIDFGDLNPIQYIKKHNLP", "down_seq": "SDLPLISQIYFDKQREENRQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr238" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.281.281", "start_pos": 281, "end_pos": 281, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "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": "LRKHSSRELLYKSRSSSSSL", "down_seq": "SNNLLANKDNSITSNNGSQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser281" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "P54199-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P54199-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P54199-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P54199-1.299.299", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.28.28", "start_pos": 28, "end_pos": 28, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DYVDLKSRTNTRQFSDDEEF", "down_seq": "TPPKLSNFGSALLSHTEKTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr28" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P54199-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P54199-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P54199-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P54199-1.42.42", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P54199-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P54199-1.48.48", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.292.292", "start_pos": 292, "end_pos": 292, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "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": "KSRSSSSSLSSNNLLANKDN", "down_seq": "ITSNNGSQPRRKVSTGSSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser292" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P54199-1.281.281", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P54199-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P54199-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P54199-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P54199-1.306.306", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.294.294", "start_pos": 294, "end_pos": 294, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RSSSSSLSSNNLLANKDNSI", "down_seq": "SNNGSQPRRKVSTGSSSSKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr294" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "P54199-1.281.281", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P54199-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P54199-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P54199-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P54199-1.306.306", "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": "P54199-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSSSSLSSNNLLANKDNSIT", "down_seq": "NNGSQPRRKVSTGSSSSKSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser295" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P54199-1.281.281", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P54199-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P54199-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P54199-1.299.299", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P54199-1.306.306", "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": "P54199-1.299.299", "start_pos": 299, "end_pos": 299, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SLSSNNLLANKDNSITSNNG", "down_seq": "QPRRKVSTGSSSSKSSIEIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser299" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P54199-1.281.281", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P54199-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P54199-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P54199-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P54199-1.306.306", "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": "P54199-1.29.29", "start_pos": 29, "end_pos": 29, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Cdc28/Cdk1 regulates spindle pole body duplication through phosphorylation of Spc42 and Mps1.", "journal": "Developmental cell", "date": "2004-08", "authors": "Jaspersen Sue L, Huneycutt Brenda J, Giddings Thomas H, Resing Katheryn A, Ahn Natalie G, Winey Mark", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "15296722", "url": "https://glygen.org/publication/PubMed/15296722" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "15296722", "url": "https://glygen.org/publication/PubMed/15296722", "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": "YVDLKSRTNTRQFSDDEEFT", "down_seq": "PPKLSNFGSALLSHTEKTSA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "PubMed", "id": "15296722", "url": "https://glygen.org/publication/PubMed/15296722" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr29" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P54199-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P54199-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P54199-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P54199-1.42.42", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P54199-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P54199-1.48.48", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.306.306", "start_pos": 306, "end_pos": 306, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "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": "LANKDNSITSNNGSQPRRKV", "down_seq": "TGSSSSKSSIEIRRALKENI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser306" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P54199-1.292.292", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P54199-1.294.294", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P54199-1.295.295", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P54199-1.299.299", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.329.329", "start_pos": 329, "end_pos": 329, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSSSKSSIEIRRALKENIDT", "down_seq": "NNSNFNSPIHKIYKGISRNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser329" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P54199-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P54199-1.336.336", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.332.332", "start_pos": 332, "end_pos": 332, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "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": "SKSSIEIRRALKENIDTSNN", "down_seq": "NFNSPIHKIYKGISRNKDSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser332" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P54199-1.329.329", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P54199-1.336.336", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.336.336", "start_pos": 336, "end_pos": 336, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IEIRRALKENIDTSNNSNFN", "down_seq": "PIHKIYKGISRNKDSDSEKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser336" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P54199-1.329.329", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P54199-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P54199-1.353.353", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.353.353", "start_pos": 353, "end_pos": 353, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NFNSPIHKIYKGISRNKDSD", "down_seq": "EKREVLRNISINANHADNLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser353" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P54199-1.336.336", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P54199-1.363.363", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.363.363", "start_pos": 363, "end_pos": 363, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KGISRNKDSDSEKREVLRNI", "down_seq": "INANHADNLLQQENKRLKRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser363" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "P54199-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "P54199-1.383.383", "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": "P54199-1.383.383", "start_pos": 383, "end_pos": 383, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SINANHADNLLQQENKRLKR", "down_seq": "LDDAITNENINSKNLEVFYH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser383" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P54199-1.363.363", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P54199-1.389.389", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P54199-1.395.395", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.389.389", "start_pos": 389, "end_pos": 389, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "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": "ADNLLQQENKRLKRSLDDAI", "down_seq": "NENINSKNLEVFYHRPAPKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr389" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "P54199-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P54199-1.395.395", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.38.38", "start_pos": 38, "end_pos": 38, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TRQFSDDEEFTTPPKLSNFG", "down_seq": "ALLSHTEKTSASEILSSHNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser38" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P54199-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P54199-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P54199-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P54199-1.42.42", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P54199-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P54199-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P54199-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P54199-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P54199-1.55.55", "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": "P54199-1.395.395", "start_pos": 395, "end_pos": 395, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QENKRLKRSLDDAITNENIN", "down_seq": "KNLEVFYHRPAPKPPVTKKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser395" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P54199-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P54199-1.389.389", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P54199-1.412.412", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.412.412", "start_pos": 412, "end_pos": 412, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NINSKNLEVFYHRPAPKPPV", "down_seq": "KKVEIVEPAKSASLSNNRNI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr412" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P54199-1.395.395", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P54199-1.423.423", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.423.423", "start_pos": 423, "end_pos": 423, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HRPAPKPPVTKKVEIVEPAK", "down_seq": "ASLSNNRNIITVNDSQYEKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser423" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P54199-1.412.412", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.42.42", "start_pos": 42, "end_pos": 42, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDDEEFTTPPKLSNFGSALL", "down_seq": "HTEKTSASEILSSHNNDKIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser42" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P54199-1.22.22", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P54199-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P54199-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P54199-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P54199-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P54199-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P54199-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "P54199-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "P54199-1.55.55", "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": "P54199-1.471.471", "start_pos": 471, "end_pos": 471, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "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": "SSRVYKVKGSGNRVYALKRV", "down_seq": "FDAFDDSSIDGFKGEIELLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser471" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P54199-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P54199-1.479.479", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.478.478", "start_pos": 478, "end_pos": 478, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KGSGNRVYALKRVSFDAFDD", "down_seq": "SIDGFKGEIELLEKLKDQKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser478" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P54199-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P54199-1.479.479", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.479.479", "start_pos": 479, "end_pos": 479, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "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": "GSGNRVYALKRVSFDAFDDS", "down_seq": "IDGFKGEIELLEKLKDQKRV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser479" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P54199-1.471.471", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P54199-1.478.478", "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": "P54199-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "FTTPPKLSNFGSALLSHTEK", "down_seq": "SASEILSSHNNDKIANRLEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr47" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P54199-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "P54199-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P54199-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P54199-1.42.42", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P54199-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "P54199-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P54199-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P54199-1.55.55", "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": "P54199-1.48.48", "start_pos": 48, "end_pos": 48, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TTPPKLSNFGSALLSHTEKT", "down_seq": "ASEILSSHNNDKIANRLEEM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser48" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P54199-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "P54199-1.29.29", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P54199-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P54199-1.42.42", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P54199-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P54199-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "P54199-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P54199-1.55.55", "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": "P54199-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "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": "PPKLSNFGSALLSHTEKTSA", "down_seq": "EILSSHNNDKIANRLEEMDR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser50" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "P54199-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P54199-1.42.42", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "P54199-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P54199-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "P54199-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "P54199-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.54.54", "start_pos": 54, "end_pos": 54, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNFGSALLSHTEKTSASEIL", "down_seq": "SHNNDKIANRLEEMDRSSSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser54" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P54199-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "P54199-1.42.42", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P54199-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "P54199-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "P54199-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P54199-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P54199-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P54199-1.72.72", "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": "P54199-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NFGSALLSHTEKTSASEILS", "down_seq": "HNNDKIANRLEEMDRSSSRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser55" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P54199-1.38.38", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "P54199-1.42.42", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "P54199-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P54199-1.48.48", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "P54199-1.50.50", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P54199-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P54199-1.71.71", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "P54199-1.72.72", "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": "P54199-1.591.591", "start_pos": 591, "end_pos": 591, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LVKGILKIIDFGIANAVPEH", "down_seq": "VNIYRETQIGTPNYMAPEAL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr591" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P54199-1.580.580", "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": "P54199-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSTN", "down_seq": "FHDYVDLKSRTNTRQFSDDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser5" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "P54199-1.22.22", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.617.617", "start_pos": 617, "end_pos": 617, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ETQIGTPNYMAPEALVAMNY", "down_seq": "QNSENQHEGNKWKVGRPSDM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr617" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.679.679", "start_pos": 679, "end_pos": 679, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GQNRLLAIMNPDVKIPFPEH", "down_seq": "SNNEKIPKSAIELMKACLYR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Thr679" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54199-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EILSSHNNDKIANRLEEMDR", "down_seq": "SSRSHPPPSMGNLTSGHTST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser71" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "P54199-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P54199-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P54199-1.72.72", "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": "P54199-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ILSSHNNDKIANRLEEMDRS", "down_seq": "SRSHPPPSMGNLTSGHTSTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" } ], "site_lbl": "Ser72" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P54199-1.54.54", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "P54199-1.55.55", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P54199-1.71.71", "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": "P54199-1.754.754", "start_pos": 754, "end_pos": 754, "uniprot_canonical_ac": "P54199-1", "length": 764, "uniprot_id": "MPS1_YEAST", "protein_name": "Serine/threonine-protein kinase MPS1", "refseq_ac": "NP_010256", "refseq_name": "serine/threonine/tyrosine protein kinase MPS1", "gene_name": "MPS1", "gene_names_uniprotkb": "MPS1; D2785; RPK1", "gene_names_refseq": "MPS1; PAC8; RPK1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54199", "url": "https://www.uniprot.org/uniprotkb/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "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": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186", "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": "VRYGSEKPHISQDDLNDVVD", "down_seq": "VLRKFADYKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54199", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54199" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000002186", "url": "https://www.yeastgenome.org/locus/S000002186" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr754" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "580", "end_pos": "580" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "115", "end_pos": "115" }, { "start_pos": "116", "end_pos": "116" }, { "start_pos": "145", "end_pos": "145" }, { "start_pos": "163", "end_pos": "163" }, { "start_pos": "173", "end_pos": "173" }, { "start_pos": "175", "end_pos": "175" }, { "start_pos": "185", "end_pos": "185" }, { "start_pos": "195", "end_pos": "195" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "22", "end_pos": "22" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "28", "end_pos": "28" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "294", "end_pos": "294" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "299", "end_pos": "299" }, { "start_pos": "29", "end_pos": "29" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "329", "end_pos": "329" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "336", "end_pos": "336" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "363", "end_pos": "363" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "38", "end_pos": "38" }, { "start_pos": "395", "end_pos": "395" }, { "start_pos": "412", "end_pos": "412" }, { "start_pos": "423", "end_pos": "423" }, { "start_pos": "42", "end_pos": "42" }, { "start_pos": "471", "end_pos": "471" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "48", "end_pos": "48" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "54", "end_pos": "54" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "591", "end_pos": "591" }, { "start_pos": "5", "end_pos": "5" }, { "start_pos": "617", "end_pos": "617" }, { "start_pos": "679", "end_pos": "679" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "754", "end_pos": "754" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.167.167", "start_pos": 167, "end_pos": 167, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TEYLHDEETLEKEKIIRNAS", "down_seq": "STSSSARVTSRNRRLSGVKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Ser167" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "P54786-1.172.172", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P54786-1.183.183", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.172.172", "start_pos": 172, "end_pos": 172, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] } ], "crossref": [ { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DEETLEKEKIIRNASSSTSS", "down_seq": "ARVTSRNRRLSGVKTLAHDV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ], "site_lbl": "Ser172" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "P54786-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P54786-1.183.183", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.183.183", "start_pos": 183, "end_pos": 183, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "RNASSSTSSSARVTSRNRRL", "down_seq": "GVKTLAHDVVLDVENDHDSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser183" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "P54786-1.167.167", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "P54786-1.172.172", "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": "P54786-1.304.304", "start_pos": 304, "end_pos": 304, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "DEPPLADKPQEGEIQVDKRI", "down_seq": "SSDIKTIRSVSLKEITEELT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "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": "Ser304" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P54786-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P54786-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "P54786-1.315.315", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.305.305", "start_pos": 305, "end_pos": 305, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "EPPLADKPQEGEIQVDKRIS", "down_seq": "SDIKTIRSVSLKEITEELTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser305" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P54786-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "P54786-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "P54786-1.315.315", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.306.306", "start_pos": 306, "end_pos": 306, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "PPLADKPQEGEIQVDKRISS", "down_seq": "DIKTIRSVSLKEITEELTKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser306" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P54786-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "P54786-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "P54786-1.315.315", "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": "P54786-1.315.315", "start_pos": 315, "end_pos": 315, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GEIQVDKRISSSDIKTIRSV", "down_seq": "LKEITEELTKISNNAGLTDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser315" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "P54786-1.304.304", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "P54786-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "P54786-1.306.306", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.402.402", "start_pos": 402, "end_pos": 402, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "ERSSLRRSKFNTYKIRLEGS", "down_seq": "LPQAVKLNSLMNIQTNDNRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser402" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "P54786-1.411.411", "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": "P54786-1.411.411", "start_pos": 411, "end_pos": 411, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "FNTYKIRLEGSSLPQAVKLN", "down_seq": "LMNIQTNDNRRSASSPASYT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser411" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "P54786-1.402.402", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.454.454", "start_pos": 454, "end_pos": 454, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "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": "PQEQASLNDFHEIFDHYRRT", "down_seq": "TDWSTENEKYVDSTNYYSDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "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": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "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": "Ser454" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "P54786-1.472.472", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.472.472", "start_pos": 472, "end_pos": 472, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RTSTDWSTENEKYVDSTNYY", "down_seq": "DEEDLTHASISQESSLLSTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser472" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P54786-1.454.454", "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": "P54786-1.50.50", "start_pos": 50, "end_pos": 50, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "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": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "High-accuracy identification and bioinformatic analysis of in vivo protein phosphorylation sites in yeast.", "journal": "Proteomics", "date": "2009-10", "authors": "Gnad Florian, de Godoy Lyris M F, Cox J\u00fcrgen, Neuhauser Nadin, Ren Shubin, Olsen Jesper V, Mann Matthias", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "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": "QMRRMRKTQLSKKELFEKRK", "down_seq": "DVLIAAKSLDTEIQNVKNLK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "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": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser50" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P54786-1.518.518", "start_pos": 518, "end_pos": 518, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "VLIKPHNTGSMISEKLDQHV", "down_seq": "SSEKSNTNNSEANHGWSWLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser518" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "P54786-1.520.520", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.520.520", "start_pos": 520, "end_pos": 520, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "IKPHNTGSMISEKLDQHVSS", "down_seq": "EKSNTNNSEANHGWSWLNSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser520" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "P54786-1.518.518", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.555.555", "start_pos": 555, "end_pos": 555, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "SWLNSSNGSLNANEQTYQQL", "down_seq": "DDEDDEECVDNEKADFVNLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr555" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "P54786-1.575.575", "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": "P54786-1.575.575", "start_pos": 575, "end_pos": 575, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "TDDEDDEECVDNEKADFVNL", "down_seq": "VSRRAKSTKRASERINHSKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser575" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "P54786-1.555.555", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.598.598", "start_pos": 598, "end_pos": 598, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "RRAKSTKRASERINHSKNRH", "down_seq": "PIFQIHSEEAKSVVITPSVV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser598" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "P54786-1.605.605", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.605.605", "start_pos": 605, "end_pos": 605, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RASERINHSKNRHSPIFQIH", "down_seq": "EEAKSVVITPSVVSSSESQP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser605" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "P54786-1.598.598", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P54786-1.619.619", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.619.619", "start_pos": 619, "end_pos": 619, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "PIFQIHSEEAKSVVITPSVV", "down_seq": "SSESQPSKPTAPAVVEKKVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser619" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "P54786-1.605.605", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.691.691", "start_pos": 691, "end_pos": 691, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "CKSDVKVIKKSVKKELKKKA", "down_seq": "HSSLSKFRKSPKKKPQEAEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser691" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.715.715", "start_pos": 715, "end_pos": 715, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "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": "LSKFRKSPKKKPQEAEVERP", "down_seq": "SPTKTITTEDIDTASVIEPE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser715" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P54786-1.716.716", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "P54786-1.723.723", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "P54786-1.730.730", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.716.716", "start_pos": 716, "end_pos": 716, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "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": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "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": "SKFRKSPKKKPQEAEVERPS", "down_seq": "PTKTITTEDIDTASVIEPEV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser716" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P54786-1.715.715", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P54786-1.723.723", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "P54786-1.730.730", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "P54786-1.723.723", "start_pos": 723, "end_pos": 723, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "KKKPQEAEVERPSSPTKTIT", "down_seq": "EDIDTASVIEPEVRSSNAST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr723" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "P54786-1.715.715", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P54786-1.716.716", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "P54786-1.730.730", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.730.730", "start_pos": 730, "end_pos": 730, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EVERPSSPTKTITTEDIDTA", "down_seq": "VIEPEVRSSNASTLLPDSHT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser730" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "P54786-1.715.715", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "P54786-1.716.716", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "P54786-1.723.723", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.73.73", "start_pos": 73, "end_pos": 73, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "LIAAKSLDTEIQNVKNLKRL", "down_seq": "IGSMDLVIDPELEFKVNSRN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser73" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P54786-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "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": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AKSLDTEIQNVKNLKRLSIG", "down_seq": "MDLVIDPELEFKVNSRNSYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "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": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" } ], "site_lbl": "Ser76" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P54786-1.73.73", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.791.791", "start_pos": 791, "end_pos": 791, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "DISGGDVNYDVEVHSSISRD", "down_seq": "TAGLEEDIGAEREDNTSPTA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr791" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "P54786-1.792.792", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.792.792", "start_pos": 792, "end_pos": 792, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "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": "ISGGDVNYDVEVHSSISRDT", "down_seq": "AGLEEDIGAEREDNTSPTAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr792" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "P54786-1.791.791", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54786-1.840.840", "start_pos": 840, "end_pos": 840, "uniprot_canonical_ac": "P54786-1", "length": 942, "uniprot_id": "ZDS2_YEAST", "protein_name": "Protein ZDS2", "refseq_ac": "NP_013598", "refseq_name": "Zds2p", "gene_name": "ZDS2", "gene_names_uniprotkb": "ZDS2; MCS1; YM8339.10", "gene_names_refseq": "CES4; ZDS2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "P54786", "url": "https://www.uniprot.org/uniprotkb/P54786" }, { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "RKLTFEDVVKPDYSNAPIKF", "down_seq": "DSAFGFPLPMITNSTVIMFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P54786", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54786" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004577", "url": "https://www.yeastgenome.org/locus/S000004577" } ], "site_lbl": "Thr840" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "167", "end_pos": "167" }, { "start_pos": "172", "end_pos": "172" }, { "start_pos": "183", "end_pos": "183" }, { "start_pos": "304", "end_pos": "304" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "315", "end_pos": "315" }, { "start_pos": "402", "end_pos": "402" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "454", "end_pos": "454" }, { "start_pos": "472", "end_pos": "472" }, { "start_pos": "50", "end_pos": "50" }, { "start_pos": "518", "end_pos": "518" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "555", "end_pos": "555" }, { "start_pos": "575", "end_pos": "575" }, { "start_pos": "598", "end_pos": "598" }, { "start_pos": "605", "end_pos": "605" }, { "start_pos": "619", "end_pos": "619" }, { "start_pos": "691", "end_pos": "691" }, { "start_pos": "715", "end_pos": "715" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "723", "end_pos": "723" }, { "start_pos": "730", "end_pos": "730" }, { "start_pos": "73", "end_pos": "73" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "791", "end_pos": "791" }, { "start_pos": "792", "end_pos": "792" }, { "start_pos": "840", "end_pos": "840" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54790-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "P54790-1", "length": 616, "uniprot_id": "ORC3_YEAST", "protein_name": "Origin recognition complex subunit 3", "refseq_ac": "NP_013097", "refseq_name": "origin recognition complex subunit 3", "gene_name": "ORC3", "gene_names_uniprotkb": "ORC3; L1365; OAF1; OIF1", "gene_names_refseq": "ORC3", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54790", "url": "https://www.uniprot.org/uniprotkb/P54790" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P54790", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54790" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003927", "url": "https://www.yeastgenome.org/locus/S000003927", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P54790", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54790", "database": "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": "DLNQSKKMNVSEFADAQRSH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003927", "url": "https://www.yeastgenome.org/locus/S000003927" }, { "database": "iPTMnet", "id": "P54790", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P54790" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser2" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P54837-1.206.208", "start_pos": 206, "end_pos": 208, "uniprot_canonical_ac": "P54837-1", "length": 211, "uniprot_id": "TMEDA_YEAST", "protein_name": "Endoplasmic reticulum vesicle protein 25", "refseq_ac": "NP_013701", "refseq_name": "Erv25p", "gene_name": "ERV25", "gene_names_uniprotkb": "ERV25; YM9571.06", "gene_names_refseq": "ERV25", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P54837", "url": "https://www.uniprot.org/uniprotkb/P54837" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Distinct roles for the cytoplasmic tail sequences of Emp24p and Erv25p in transport between the endoplasmic reticulum and Golgi complex.", "journal": "The Journal of biological chemistry", "date": "2001-11-16", "authors": "Belden W J, Barlowe C", "evidence": [ { "database": "UniProtKB", "id": "P54837", "url": "https://www.uniprot.org/uniprotkb/P54837" } ], "reference": [ { "type": "PubMed", "id": "11560939", "url": "https://glygen.org/publication/PubMed/11560939" } ] } ], "crossref": [ { "id": "P54837", "url": "https://www.uniprot.org/uniprotkb/P54837", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11560939", "url": "https://glygen.org/publication/PubMed/11560939", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "KTK", "start_aa": "K", "up_seq": "VIIVLSSLGVWQVNYLKNYF", "down_seq": "HII", "mutagenesis": [ { "sequence_org": "KTK", "sequence_mut": "ATA", "comment": "Decrease in COPI-binding.", "evidence": [ { "database": "UniProtKB", "id": "P54837", "url": "https://www.uniprot.org/uniprotkb/P54837" }, { "database": "PubMed", "id": "11560939", "url": "https://glygen.org/publication/PubMed/11560939" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "206", "end_pos": "208" } ] } ], "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": "P80210-1.141.141", "start_pos": 141, "end_pos": 141, "uniprot_canonical_ac": "P80210-1", "length": 433, "uniprot_id": "PURA_YEAST", "protein_name": "Adenylosuccinate synthetase", "refseq_ac": "NP_014179", "refseq_name": "adenylosuccinate synthase", "gene_name": "ADE12", "gene_names_uniprotkb": "ADE12; N1290", "gene_names_refseq": "ADE12; BRA9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P80210", "url": "https://www.uniprot.org/uniprotkb/P80210" } ], "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": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] }, { "id": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210", "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": "LSGRSKDGKNIGTTGKGIGP", "down_seq": "YSTKASRSGLRVHHLVNDQP", "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": "Thr141", "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": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Thr141" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "141", "end_pos": "141" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "143", "end_pos": "143" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "P80210-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "P80210-1.125.125", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "P80210-1.143.143", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P80210-1.122.122", "start_pos": 122, "end_pos": 122, "uniprot_canonical_ac": "P80210-1", "length": 433, "uniprot_id": "PURA_YEAST", "protein_name": "Adenylosuccinate synthetase", "refseq_ac": "NP_014179", "refseq_name": "adenylosuccinate synthase", "gene_name": "ADE12", "gene_names_uniprotkb": "ADE12; N1290", "gene_names_refseq": "ADE12; BRA9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P80210", "url": "https://www.uniprot.org/uniprotkb/P80210" } ], "common_name": "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": "P80210", "url": "https://www.uniprot.org/uniprotkb/P80210" }, { "database": "iPTMnet", "id": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210" } ], "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": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005164", "url": "https://www.yeastgenome.org/locus/S000005164", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210", "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": "RAHLVFDFHQVTDKLRELEL", "down_seq": "GRSKDGKNIGTTGKGIGPTY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005164", "url": "https://www.yeastgenome.org/locus/S000005164" }, { "database": "iPTMnet", "id": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser122" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "141", "end_pos": "141" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "143", "end_pos": "143" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "P80210-1.125.125", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "P80210-1.141.141", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P80210-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "P80210-1", "length": 433, "uniprot_id": "PURA_YEAST", "protein_name": "Adenylosuccinate synthetase", "refseq_ac": "NP_014179", "refseq_name": "adenylosuccinate synthase", "gene_name": "ADE12", "gene_names_uniprotkb": "ADE12; N1290", "gene_names_refseq": "ADE12; BRA9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P80210", "url": "https://www.uniprot.org/uniprotkb/P80210" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005164", "url": "https://www.yeastgenome.org/locus/S000005164", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LVFDFHQVTDKLRELELSGR", "down_seq": "KDGKNIGTTGKGIGPTYSTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005164", "url": "https://www.yeastgenome.org/locus/S000005164" }, { "database": "iPTMnet", "id": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser125" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "141", "end_pos": "141" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "143", "end_pos": "143" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "P80210-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "P80210-1.141.141", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "P80210-1.143.143", "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": "P80210-1.143.143", "start_pos": 143, "end_pos": 143, "uniprot_canonical_ac": "P80210-1", "length": 433, "uniprot_id": "PURA_YEAST", "protein_name": "Adenylosuccinate synthetase", "refseq_ac": "NP_014179", "refseq_name": "adenylosuccinate synthase", "gene_name": "ADE12", "gene_names_uniprotkb": "ADE12; N1290", "gene_names_refseq": "ADE12; BRA9", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P80210", "url": "https://www.uniprot.org/uniprotkb/P80210" } ], "common_name": "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": "P80210", "url": "https://www.uniprot.org/uniprotkb/P80210" }, { "database": "iPTMnet", "id": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210" } ], "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": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005164", "url": "https://www.yeastgenome.org/locus/S000005164", "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": "GRSKDGKNIGTTGKGIGPTY", "down_seq": "TKASRSGLRVHHLVNDQPGA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "P80210", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P80210" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000005164", "url": "https://www.yeastgenome.org/locus/S000005164" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser143" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "141", "end_pos": "141" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "122", "end_pos": "122" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "143", "end_pos": "143" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "P80210-1.125.125", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "P80210-1.141.141", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "P89102-1.184.184", "start_pos": 184, "end_pos": 184, "uniprot_canonical_ac": "P89102-1", "length": 971, "uniprot_id": "SEC5_YEAST", "protein_name": "Exocyst complex component SEC5", "refseq_ac": "NP_010450", "refseq_name": "exocyst subunit SEC5", "gene_name": "SEC5", "gene_names_uniprotkb": "SEC5; YD8358.20C; YD9489.01C", "gene_names_refseq": "SEC5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "P89102", "url": "https://www.uniprot.org/uniprotkb/P89102" } ], "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": "P89102", "url": "https://www.uniprot.org/uniprotkb/P89102" }, { "database": "iPTMnet", "id": "P89102", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89102" } ], "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": "P89102", "url": "https://www.uniprot.org/uniprotkb/P89102" }, { "database": "iPTMnet", "id": "P89102", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89102" } ], "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": "P89102", "url": "https://www.uniprot.org/uniprotkb/P89102" }, { "database": "iPTMnet", "id": "P89102", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89102" } ], "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": "P89102", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89102" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "P89102", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89102" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "P89102", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89102" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "P89102", "url": "https://www.uniprot.org/uniprotkb/P89102", "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": "P89102", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89102", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000002573", "url": "https://www.yeastgenome.org/locus/S000002573", "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": "KLDQIYKEFDEKTNEKNQCD", "down_seq": "PKENQINVESLNKKVDEVIR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "P89102", "url": "https://www.uniprot.org/uniprotkb/P89102" }, { "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": "P89102", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/P89102" }, { "database": "SGD", "id": "S000002573", "url": "https://www.yeastgenome.org/locus/S000002573" }, { "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": "Ser184" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "184", "end_pos": "184" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q00764-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "Q00764-1", "length": 495, "uniprot_id": "TPS1_YEAST", "protein_name": "Alpha,alpha-trehalose-phosphate synthase [UDP-forming] 56 kDa subunit", "refseq_ac": "NP_009684", "refseq_name": "alpha,alpha-trehalose-phosphate synthase (UDP-forming) TPS1", "gene_name": "TPS1", "gene_names_uniprotkb": "TPS1; BYP1; CIF1; FDP1; GGS1; GLC6; TSS1; YBR0922", "gene_names_refseq": "BYP1; CIF1; FDP1; GGS1; GLC6; TPS1; TSS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00764", "url": "https://www.uniprot.org/uniprotkb/Q00764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Characterization of glycogen-deficient glc mutants of Saccharomyces cerevisiae.", "journal": "Genetics", "date": "1994-02", "authors": "Cannon J F, Pringle J R, Fiechter A, Khalil M", "evidence": [ { "database": "UniProtKB", "id": "Q00764", "url": "https://www.uniprot.org/uniprotkb/Q00764" } ], "reference": [ { "type": "PubMed", "id": "8150278", "url": "https://glygen.org/publication/PubMed/8150278" } ] } ], "crossref": [ { "id": "Q00764", "url": "https://www.uniprot.org/uniprotkb/Q00764", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8150278", "url": "https://glygen.org/publication/PubMed/8150278", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "ILKGVLSCDLVGFHTYDYAR", "down_seq": "FLSSVQRVLNVNTLPNGVEY", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "Y", "comment": "In GLC6-1; low glycogen accumulation.", "evidence": [ { "database": "UniProtKB", "id": "Q00764", "url": "https://www.uniprot.org/uniprotkb/Q00764" }, { "database": "PubMed", "id": "8150278", "url": "https://glygen.org/publication/PubMed/8150278" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "223", "end_pos": "223" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "342", "end_pos": "342" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q00764-1.226.226", "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": "Q00764-1.13.13", "start_pos": 13, "end_pos": 13, "uniprot_canonical_ac": "Q00764-1", "length": 495, "uniprot_id": "TPS1_YEAST", "protein_name": "Alpha,alpha-trehalose-phosphate synthase [UDP-forming] 56 kDa subunit", "refseq_ac": "NP_009684", "refseq_name": "alpha,alpha-trehalose-phosphate synthase (UDP-forming) TPS1", "gene_name": "TPS1", "gene_names_uniprotkb": "TPS1; BYP1; CIF1; FDP1; GGS1; GLC6; TSS1; YBR0922", "gene_names_refseq": "BYP1; CIF1; FDP1; GGS1; GLC6; TPS1; TSS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00764", "url": "https://www.uniprot.org/uniprotkb/Q00764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & 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": "Q00764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00764" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q00764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000330", "url": "https://www.yeastgenome.org/locus/S000000330", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MTTDNAKAQLTS", "down_seq": "SGGNIIVVSNRLPVTITKNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q00764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00764" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000330", "url": "https://www.yeastgenome.org/locus/S000000330" } ], "site_lbl": "Ser13" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "223", "end_pos": "223" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "342", "end_pos": "342" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00764-1.226.226", "start_pos": 226, "end_pos": 226, "uniprot_canonical_ac": "Q00764-1", "length": 495, "uniprot_id": "TPS1_YEAST", "protein_name": "Alpha,alpha-trehalose-phosphate synthase [UDP-forming] 56 kDa subunit", "refseq_ac": "NP_009684", "refseq_name": "alpha,alpha-trehalose-phosphate synthase (UDP-forming) TPS1", "gene_name": "TPS1", "gene_names_uniprotkb": "TPS1; BYP1; CIF1; FDP1; GGS1; GLC6; TSS1; YBR0922", "gene_names_refseq": "BYP1; CIF1; FDP1; GGS1; GLC6; TPS1; TSS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00764", "url": "https://www.uniprot.org/uniprotkb/Q00764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000330", "url": "https://www.yeastgenome.org/locus/S000000330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00764", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GVLSCDLVGFHTYDYARHFL", "down_seq": "SVQRVLNVNTLPNGVEYQGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000330", "url": "https://www.yeastgenome.org/locus/S000000330" }, { "database": "iPTMnet", "id": "Q00764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00764" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser226" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "223", "end_pos": "223" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "342", "end_pos": "342" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q00764-1.223.223", "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": "Q00764-1.342.342", "start_pos": 342, "end_pos": 342, "uniprot_canonical_ac": "Q00764-1", "length": 495, "uniprot_id": "TPS1_YEAST", "protein_name": "Alpha,alpha-trehalose-phosphate synthase [UDP-forming] 56 kDa subunit", "refseq_ac": "NP_009684", "refseq_name": "alpha,alpha-trehalose-phosphate synthase (UDP-forming) TPS1", "gene_name": "TPS1", "gene_names_uniprotkb": "TPS1; BYP1; CIF1; FDP1; GGS1; GLC6; TSS1; YBR0922", "gene_names_refseq": "BYP1; CIF1; FDP1; GGS1; GLC6; TPS1; TSS1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00764", "url": "https://www.uniprot.org/uniprotkb/Q00764" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00764" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00764" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000330", "url": "https://www.yeastgenome.org/locus/S000000330", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00764", "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": "VLVQVAVPSRGDVEEYQYLR", "down_seq": "VVNELVGRINGQFGTVEFVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000330", "url": "https://www.yeastgenome.org/locus/S000000330" }, { "database": "iPTMnet", "id": "Q00764", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00764" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser342" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "223", "end_pos": "223" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "13", "end_pos": "13" }, { "start_pos": "226", "end_pos": "226" }, { "start_pos": "342", "end_pos": "342" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00776-1.161.161", "start_pos": 161, "end_pos": 161, "uniprot_canonical_ac": "Q00776-1", "length": 475, "uniprot_id": "AP1M1_YEAST", "protein_name": "AP-1 complex subunit mu-1-I", "refseq_ac": "NP_015064", "refseq_name": "Apm1p", "gene_name": "APM1", "gene_names_uniprotkb": "APM1; P0394; YAP54", "gene_names_refseq": "APM1; YAP54", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00776", "url": "https://www.uniprot.org/uniprotkb/Q00776" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" } ], "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": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006180", "url": "https://www.yeastgenome.org/locus/S000006180", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776", "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": "FKLVKSAKKKRNATRPPVAL", "down_seq": "NSVSWRPEGITHKKNEAFLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006180", "url": "https://www.yeastgenome.org/locus/S000006180" }, { "database": "iPTMnet", "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr161" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "161", "end_pos": "161" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "284", "end_pos": "284" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00776-1.239.239", "start_pos": 239, "end_pos": 239, "uniprot_canonical_ac": "Q00776-1", "length": 475, "uniprot_id": "AP1M1_YEAST", "protein_name": "AP-1 complex subunit mu-1-I", "refseq_ac": "NP_015064", "refseq_name": "Apm1p", "gene_name": "APM1", "gene_names_uniprotkb": "APM1; P0394; YAP54", "gene_names_refseq": "APM1; YAP54", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00776", "url": "https://www.uniprot.org/uniprotkb/Q00776" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000006180", "url": "https://www.yeastgenome.org/locus/S000006180", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776", "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": "LGINDKGIFSKYLDDDTNIP", "down_seq": "ASATTSDNNTETDKKPSITS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006180", "url": "https://www.yeastgenome.org/locus/S000006180" }, { "database": "iPTMnet", "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser239" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "161", "end_pos": "161" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "284", "end_pos": "284" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "Q00776-1.245.245", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q00776-1.249.249", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00776-1.245.245", "start_pos": 245, "end_pos": 245, "uniprot_canonical_ac": "Q00776-1", "length": 475, "uniprot_id": "AP1M1_YEAST", "protein_name": "AP-1 complex subunit mu-1-I", "refseq_ac": "NP_015064", "refseq_name": "Apm1p", "gene_name": "APM1", "gene_names_uniprotkb": "APM1; P0394; YAP54", "gene_names_refseq": "APM1; YAP54", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00776", "url": "https://www.uniprot.org/uniprotkb/Q00776" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" } ], "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": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006180", "url": "https://www.yeastgenome.org/locus/S000006180", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776", "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": "GIFSKYLDDDTNIPSASATT", "down_seq": "DNNTETDKKPSITSSSATNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006180", "url": "https://www.yeastgenome.org/locus/S000006180" }, { "database": "iPTMnet", "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser245" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "161", "end_pos": "161" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "284", "end_pos": "284" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q00776-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00776-1.249.249", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00776-1.249.249", "start_pos": 249, "end_pos": 249, "uniprot_canonical_ac": "Q00776-1", "length": 475, "uniprot_id": "AP1M1_YEAST", "protein_name": "AP-1 complex subunit mu-1-I", "refseq_ac": "NP_015064", "refseq_name": "Apm1p", "gene_name": "APM1", "gene_names_uniprotkb": "APM1; P0394; YAP54", "gene_names_refseq": "APM1; YAP54", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00776", "url": "https://www.uniprot.org/uniprotkb/Q00776" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000006180", "url": "https://www.yeastgenome.org/locus/S000006180", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776", "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": "KYLDDDTNIPSASATTSDNN", "down_seq": "ETDKKPSITSSSATNKKKVN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006180", "url": "https://www.yeastgenome.org/locus/S000006180" }, { "database": "iPTMnet", "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr249" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "161", "end_pos": "161" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "284", "end_pos": "284" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q00776-1.239.239", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q00776-1.245.245", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00776-1.284.284", "start_pos": 284, "end_pos": 284, "uniprot_canonical_ac": "Q00776-1", "length": 475, "uniprot_id": "AP1M1_YEAST", "protein_name": "AP-1 complex subunit mu-1-I", "refseq_ac": "NP_015064", "refseq_name": "Apm1p", "gene_name": "APM1", "gene_names_uniprotkb": "APM1; P0394; YAP54", "gene_names_refseq": "APM1; YAP54", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00776", "url": "https://www.uniprot.org/uniprotkb/Q00776" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006180", "url": "https://www.yeastgenome.org/locus/S000006180", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NKKKVNIELEDLKFHQCVRL", "down_seq": "KFENEKIITFIPPDGKFDLM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006180", "url": "https://www.yeastgenome.org/locus/S000006180" }, { "database": "iPTMnet", "id": "Q00776", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00776" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser284" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "161", "end_pos": "161" }, { "start_pos": "239", "end_pos": "239" }, { "start_pos": "245", "end_pos": "245" }, { "start_pos": "249", "end_pos": "249" }, { "start_pos": "284", "end_pos": "284" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00916-1.273.273", "start_pos": 273, "end_pos": 273, "uniprot_canonical_ac": "Q00916-1", "length": 300, "uniprot_id": "RU17_YEAST", "protein_name": "U1 small nuclear ribonucleoprotein 70 kDa homolog", "refseq_ac": "NP_012203", "refseq_name": "U1 snRNP complex subunit SNP1", "gene_name": "SNP1", "gene_names_uniprotkb": "SNP1", "gene_names_refseq": "SNP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "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": "SSTLDARYRGNRPLLSAATP", "down_seq": "AAVTSVYKSRNSRTRESQPA", "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": "Thr273", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "273", "end_pos": "273" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "18", "end_pos": "93" }, { "start_pos": "18", "end_pos": "98" }, { "start_pos": "92", "end_pos": "248" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "63", "end_pos": "63" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 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": "Q00916-1.148.148", "start_pos": 148, "end_pos": 148, "uniprot_canonical_ac": "Q00916-1", "length": 300, "uniprot_id": "RU17_YEAST", "protein_name": "U1 small nuclear ribonucleoprotein 70 kDa homolog", "refseq_ac": "NP_012203", "refseq_name": "U1 snRNP complex subunit SNP1", "gene_name": "SNP1", "gene_names_uniprotkb": "SNP1", "gene_names_refseq": "SNP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The RRM domain is dispensable for yeast U1-70K function.", "journal": "Nucleic acids symposium series", "date": "1995", "authors": "Hilleren P J, Kao H Y, Siliciano P G", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "reference": [ { "type": "PubMed", "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384" } ] }, { "title": "The amino-terminal domain of yeast U1-70K is necessary and sufficient for function.", "journal": "Molecular and cellular biology", "date": "1995-11", "authors": "Hilleren P J, Kao H Y, Siliciano P G", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "reference": [ { "type": "PubMed", "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787" } ] } ], "crossref": [ { "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384", "database": "PubMed", "categories": [ "Other" ] }, { "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "VKFGEIEKIRIVKDKITQKS", "down_seq": "GYAFIVFKDPISSKMAFKEI", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "L", "comment": "No splicing defects. Associates with U1 snRNP; when associated with T-150 and L-152.", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" }, { "database": "PubMed", "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384" }, { "database": "PubMed", "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "273", "end_pos": "273" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "18", "end_pos": "93" }, { "start_pos": "18", "end_pos": "98" }, { "start_pos": "92", "end_pos": "248" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "63", "end_pos": "63" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q00916-1.150.150", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q00916-1.152.152", "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": "Q00916-1.150.150", "start_pos": 150, "end_pos": 150, "uniprot_canonical_ac": "Q00916-1", "length": 300, "uniprot_id": "RU17_YEAST", "protein_name": "U1 small nuclear ribonucleoprotein 70 kDa homolog", "refseq_ac": "NP_012203", "refseq_name": "U1 snRNP complex subunit SNP1", "gene_name": "SNP1", "gene_names_uniprotkb": "SNP1", "gene_names_refseq": "SNP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The RRM domain is dispensable for yeast U1-70K function.", "journal": "Nucleic acids symposium series", "date": "1995", "authors": "Hilleren P J, Kao H Y, Siliciano P G", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "reference": [ { "type": "PubMed", "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384" } ] }, { "title": "The amino-terminal domain of yeast U1-70K is necessary and sufficient for function.", "journal": "Molecular and cellular biology", "date": "1995-11", "authors": "Hilleren P J, Kao H Y, Siliciano P G", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "reference": [ { "type": "PubMed", "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787" } ] } ], "crossref": [ { "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384", "database": "PubMed", "categories": [ "Other" ] }, { "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "FGEIEKIRIVKDKITQKSKG", "down_seq": "AFIVFKDPISSKMAFKEIGV", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "T", "comment": "No splicing defects. Associates with U1 snRNP; when associated with L-148 and L-152.", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" }, { "database": "PubMed", "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384" }, { "database": "PubMed", "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "273", "end_pos": "273" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "18", "end_pos": "93" }, { "start_pos": "18", "end_pos": "98" }, { "start_pos": "92", "end_pos": "248" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "63", "end_pos": "63" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q00916-1.148.148", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q00916-1.152.152", "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": "Q00916-1.152.152", "start_pos": 152, "end_pos": 152, "uniprot_canonical_ac": "Q00916-1", "length": 300, "uniprot_id": "RU17_YEAST", "protein_name": "U1 small nuclear ribonucleoprotein 70 kDa homolog", "refseq_ac": "NP_012203", "refseq_name": "U1 snRNP complex subunit SNP1", "gene_name": "SNP1", "gene_names_uniprotkb": "SNP1", "gene_names_refseq": "SNP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The RRM domain is dispensable for yeast U1-70K function.", "journal": "Nucleic acids symposium series", "date": "1995", "authors": "Hilleren P J, Kao H Y, Siliciano P G", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "reference": [ { "type": "PubMed", "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384" } ] }, { "title": "The amino-terminal domain of yeast U1-70K is necessary and sufficient for function.", "journal": "Molecular and cellular biology", "date": "1995-11", "authors": "Hilleren P J, Kao H Y, Siliciano P G", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "reference": [ { "type": "PubMed", "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787" } ] } ], "crossref": [ { "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384", "database": "PubMed", "categories": [ "Other" ] }, { "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "EIEKIRIVKDKITQKSKGYA", "down_seq": "IVFKDPISSKMAFKEIGVHR", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "L", "comment": "No splicing defects. Associates with U1 snRNP; when associated with L-148 and T-150.", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" }, { "database": "PubMed", "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384" }, { "database": "PubMed", "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "273", "end_pos": "273" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "18", "end_pos": "93" }, { "start_pos": "18", "end_pos": "98" }, { "start_pos": "92", "end_pos": "248" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "63", "end_pos": "63" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q00916-1.148.148", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q00916-1.150.150", "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": "Q00916-1.18.93", "start_pos": 18, "end_pos": 93, "uniprot_canonical_ac": "Q00916-1", "length": 300, "uniprot_id": "RU17_YEAST", "protein_name": "U1 small nuclear ribonucleoprotein 70 kDa homolog", "refseq_ac": "NP_012203", "refseq_name": "U1 snRNP complex subunit SNP1", "gene_name": "SNP1", "gene_names_uniprotkb": "SNP1", "gene_names_refseq": "SNP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The RRM domain is dispensable for yeast U1-70K function.", "journal": "Nucleic acids symposium series", "date": "1995", "authors": "Hilleren P J, Kao H Y, Siliciano P G", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "reference": [ { "type": "PubMed", "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384" } ] } ], "crossref": [ { "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "PRPPLSYKRPTDYPYAKRQTNPNITGVANLLSTSLKHYMEEFPEGSPNNHLQRYEDIKLSKIKNAQLLDRRLQNWN", "start_aa": "P", "up_seq": "MNYNLSKYPDDVSRLFK", "down_seq": "PNVDPHIKDTDPYRTIFIGR", "mutagenesis": [ { "sequence_org": "PRPPLSYKRPTDYPYAKRQTNPNITGVANLLSTSLKHYMEEFPEGSPNNHLQRYEDIKLSKIKNAQLLDRRLQNWN", "sequence_mut": "", "comment": "Fails to complement the growth and splicing defective, temperature-sensitive phenotype of the null allele at 30 degrees Celsius. No association with U1 snRNP.", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" }, { "database": "PubMed", "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "273", "end_pos": "273" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "18", "end_pos": "93" }, { "start_pos": "18", "end_pos": "98" }, { "start_pos": "92", "end_pos": "248" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "63", "end_pos": "63" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q00916-1.92.248", "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": "Q00916-1.18.98", "start_pos": 18, "end_pos": 98, "uniprot_canonical_ac": "Q00916-1", "length": 300, "uniprot_id": "RU17_YEAST", "protein_name": "U1 small nuclear ribonucleoprotein 70 kDa homolog", "refseq_ac": "NP_012203", "refseq_name": "U1 snRNP complex subunit SNP1", "gene_name": "SNP1", "gene_names_uniprotkb": "SNP1", "gene_names_refseq": "SNP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The amino-terminal domain of yeast U1-70K is necessary and sufficient for function.", "journal": "Molecular and cellular biology", "date": "1995-11", "authors": "Hilleren P J, Kao H Y, Siliciano P G", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "reference": [ { "type": "PubMed", "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787" } ] } ], "crossref": [ { "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "PRPPLSYKRPTDYPYAKRQTNPNITGVANLLSTSLKHYMEEFPEGSPNNHLQRYEDIKLSKIKNAQLLDRRLQNWNPNVDP", "start_aa": "P", "up_seq": "MNYNLSKYPDDVSRLFK", "down_seq": "HIKDTDPYRTIFIGRLPYDL", "mutagenesis": [ { "sequence_org": "PRPPLSYKRPTDYPYAKRQTNPNITGVANLLSTSLKHYMEEFPEGSPNNHLQRYEDIKLSKIKNAQLLDRRLQNWNPNVDP", "sequence_mut": "", "comment": "Severely temperature-sensitive. Defective in pre-mRNA splicing.", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" }, { "database": "PubMed", "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "273", "end_pos": "273" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "18", "end_pos": "93" }, { "start_pos": "18", "end_pos": "98" }, { "start_pos": "92", "end_pos": "248" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "63", "end_pos": "63" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "Q00916-1.92.248", "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": "Q00916-1.92.248", "start_pos": 92, "end_pos": 248, "uniprot_canonical_ac": "Q00916-1", "length": 300, "uniprot_id": "RU17_YEAST", "protein_name": "U1 small nuclear ribonucleoprotein 70 kDa homolog", "refseq_ac": "NP_012203", "refseq_name": "U1 snRNP complex subunit SNP1", "gene_name": "SNP1", "gene_names_uniprotkb": "SNP1", "gene_names_refseq": "SNP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "The RRM domain is dispensable for yeast U1-70K function.", "journal": "Nucleic acids symposium series", "date": "1995", "authors": "Hilleren P J, Kao H Y, Siliciano P G", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "reference": [ { "type": "PubMed", "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384" } ] }, { "title": "The amino-terminal domain of yeast U1-70K is necessary and sufficient for function.", "journal": "Molecular and cellular biology", "date": "1995-11", "authors": "Hilleren P J, Kao H Y, Siliciano P G", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "reference": [ { "type": "PubMed", "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787" } ] } ], "crossref": [ { "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384", "database": "PubMed", "categories": [ "Other" ] }, { "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "WNPNVDPHIKDTDPYRTIFIGRLPYDLDEIELQKYFVKFGEIEKIRIVKDKITQKSKGYAFIVFKDPISSKMAFKEIGVHRGIQIKDRICIVDIERGRTVKYFKPRRLGGGLGGRGYSNRDSRLPGRFASASTSNPAERNYAPRLPRRETSSSAYSA", "start_aa": "W", "up_seq": "EDIKLSKIKNAQLLDRRLQN", "down_seq": "DRYGSSTLDARYRGNRPLLS", "mutagenesis": [ { "sequence_org": "WNPNVDPHIKDTDPYRTIFIGRLPYDLDEIELQKYFVKFGEIEKIRIVKDKITQKSKGYAFIVFKDPISSKMAFKEIGVHRGIQIKDRICIVDIERGRTVKYFKPRRLGGGLGGRGYSNRDSRLPGRFASASTSNPAERNYAPRLPRRETSSSAYSA", "sequence_mut": "", "comment": "Associates with U1 snRNP.", "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" }, { "database": "PubMed", "id": "8643384", "url": "https://glygen.org/publication/PubMed/8643384" }, { "database": "PubMed", "id": "7565787", "url": "https://glygen.org/publication/PubMed/7565787" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "273", "end_pos": "273" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "18", "end_pos": "93" }, { "start_pos": "18", "end_pos": "98" }, { "start_pos": "92", "end_pos": "248" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "63", "end_pos": "63" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q00916-1.18.93", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q00916-1.18.98", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q00916-1.242.242", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00916-1.221.221", "start_pos": 221, "end_pos": 221, "uniprot_canonical_ac": "Q00916-1", "length": 300, "uniprot_id": "RU17_YEAST", "protein_name": "U1 small nuclear ribonucleoprotein 70 kDa homolog", "refseq_ac": "NP_012203", "refseq_name": "U1 snRNP complex subunit SNP1", "gene_name": "SNP1", "gene_names_uniprotkb": "SNP1", "gene_names_refseq": "SNP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q00916", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00916" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00916", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00916" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001323", "url": "https://www.yeastgenome.org/locus/S000001323", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00916", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00916", "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": "GGLGGRGYSNRDSRLPGRFA", "down_seq": "ASTSNPAERNYAPRLPRRET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001323", "url": "https://www.yeastgenome.org/locus/S000001323" }, { "database": "iPTMnet", "id": "Q00916", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00916" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser221" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "273", "end_pos": "273" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "18", "end_pos": "93" }, { "start_pos": "18", "end_pos": "98" }, { "start_pos": "92", "end_pos": "248" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "63", "end_pos": "63" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q00916-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "Q00916-1", "length": 300, "uniprot_id": "RU17_YEAST", "protein_name": "U1 small nuclear ribonucleoprotein 70 kDa homolog", "refseq_ac": "NP_012203", "refseq_name": "U1 snRNP complex subunit SNP1", "gene_name": "SNP1", "gene_names_uniprotkb": "SNP1", "gene_names_refseq": "SNP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00916", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00916" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001323", "url": "https://www.yeastgenome.org/locus/S000001323", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00916", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00916", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASTSNPAERNYAPRLPRRET", "down_seq": "SSAYSADRYGSSTLDARYRG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001323", "url": "https://www.yeastgenome.org/locus/S000001323" }, { "database": "iPTMnet", "id": "Q00916", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00916" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser242" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "273", "end_pos": "273" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "18", "end_pos": "93" }, { "start_pos": "18", "end_pos": "98" }, { "start_pos": "92", "end_pos": "248" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "63", "end_pos": "63" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q00916-1.92.248", "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": "Q00916-1.63.63", "start_pos": 63, "end_pos": 63, "uniprot_canonical_ac": "Q00916-1", "length": 300, "uniprot_id": "RU17_YEAST", "protein_name": "U1 small nuclear ribonucleoprotein 70 kDa homolog", "refseq_ac": "NP_012203", "refseq_name": "U1 snRNP complex subunit SNP1", "gene_name": "SNP1", "gene_names_uniprotkb": "SNP1", "gene_names_refseq": "SNP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q00916", "url": "https://www.uniprot.org/uniprotkb/Q00916" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q00916", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00916" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001323", "url": "https://www.yeastgenome.org/locus/S000001323", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q00916", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00916", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GVANLLSTSLKHYMEEFPEG", "down_seq": "PNNHLQRYEDIKLSKIKNAQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001323", "url": "https://www.yeastgenome.org/locus/S000001323" }, { "database": "iPTMnet", "id": "Q00916", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q00916" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser63" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "273", "end_pos": "273" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "152", "end_pos": "152" }, { "start_pos": "18", "end_pos": "93" }, { "start_pos": "18", "end_pos": "98" }, { "start_pos": "92", "end_pos": "248" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "221", "end_pos": "221" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "63", "end_pos": "63" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.378.378", "start_pos": 378, "end_pos": 378, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "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": "Q01329", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01329" }, { "database": "O-GlcNAc Atlas", "id": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "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": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "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": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "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": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "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": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "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": "ISLWKRQLSALLSTLGVSTK", "down_seq": "PTPVSAPATGSSTENMLDQL", "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": "Thr378", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01329", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01329" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "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": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr378" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q01329-1.380.380", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01329-1.383.383", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01329-1.387.387", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01329-1.389.389", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01329-1.390.390", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.380.380", "start_pos": 380, "end_pos": 380, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "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": "Q01329", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01329" }, { "database": "O-GlcNAc Atlas", "id": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "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": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "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": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "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": "LWKRQLSALLSTLGVSTKTP", "down_seq": "PVSAPATGSSTENMLDQLKI", "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": "Thr380", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01329", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01329" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr380" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q01329-1.378.378", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01329-1.383.383", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01329-1.387.387", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01329-1.389.389", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01329-1.390.390", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.383.383", "start_pos": 383, "end_pos": 383, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "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": "Q01329", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01329" }, { "database": "O-GlcNAc Atlas", "id": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "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": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RQLSALLSTLGVSTKTPTPV", "down_seq": "APATGSSTENMLDQLKILQK", "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": "Ser383", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01329", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01329" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser383" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q01329-1.378.378", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01329-1.380.380", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01329-1.387.387", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01329-1.389.389", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01329-1.390.390", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.387.387", "start_pos": 387, "end_pos": 387, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "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": "Q01329", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01329" }, { "database": "O-GlcNAc Atlas", "id": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329" } ], "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": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "ALLSTLGVSTKTPTPVSAPA", "down_seq": "GSSTENMLDQLKILQKYTLN", "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": "Thr387", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01329", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01329" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01329-1.378.378", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01329-1.380.380", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01329-1.383.383", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01329-1.389.389", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01329-1.390.390", "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": "Q01329-1.389.389", "start_pos": 389, "end_pos": 389, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "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": "Q01329", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01329" }, { "database": "O-GlcNAc Atlas", "id": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "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": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSTLGVSTKTPTPVSAPATG", "down_seq": "STENMLDQLKILQKYTLNKA", "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": "Ser389", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01329", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01329" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser389" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q01329-1.378.378", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01329-1.380.380", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01329-1.383.383", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01329-1.387.387", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01329-1.390.390", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.390.390", "start_pos": 390, "end_pos": 390, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "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": "Q01329", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01329" }, { "database": "O-GlcNAc Atlas", "id": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "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": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "STLGVSTKTPTPVSAPATGS", "down_seq": "TENMLDQLKILQKYTLNKAS", "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": "Ser390", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01329", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01329" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser390" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01329-1.378.378", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q01329-1.380.380", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01329-1.383.383", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01329-1.387.387", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01329-1.389.389", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "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": "Q01329", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01329" }, { "database": "O-GlcNAc Atlas", "id": "Q01329", "url": "https://oglcnac.org/atlas/detail/Q01329" } ], "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": "Q01329", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01329", "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": "Q01329", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01329" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "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": "Q01329-1.305.305", "start_pos": 305, "end_pos": 305, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RAYKNFVQFGLKNQIITKSL", "down_seq": "SGSGSSIYSKLTKISQTLHV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser305" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01329-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01329-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01329-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01329-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01329-1.313.313", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01329-1.320.320", "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": "Q01329-1.306.306", "start_pos": 306, "end_pos": 306, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AYKNFVQFGLKNQIITKSLS", "down_seq": "GSGSSIYSKLTKISQTLHVI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser306" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01329-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01329-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01329-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01329-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01329-1.313.313", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01329-1.320.320", "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": "Q01329-1.308.308", "start_pos": 308, "end_pos": 308, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KNFVQFGLKNQIITKSLSSG", "down_seq": "GSSIYSKLTKISQTLHVIGE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser308" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q01329-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01329-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01329-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01329-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01329-1.313.313", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01329-1.320.320", "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": "Q01329-1.310.310", "start_pos": 310, "end_pos": 310, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FVQFGLKNQIITKSLSSGSG", "down_seq": "SIYSKLTKISQTLHVIGEET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser310" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q01329-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01329-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01329-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01329-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01329-1.313.313", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01329-1.320.320", "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": "Q01329-1.311.311", "start_pos": 311, "end_pos": 311, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VQFGLKNQIITKSLSSGSGS", "down_seq": "IYSKLTKISQTLHVIGEETK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser311" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q01329-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01329-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01329-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01329-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01329-1.313.313", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01329-1.320.320", "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": "Q01329-1.313.313", "start_pos": 313, "end_pos": 313, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "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": "FGLKNQIITKSLSSGSGSSI", "down_seq": "SKLTKISQTLHVIGEETKSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr313" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q01329-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01329-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01329-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01329-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01329-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01329-1.320.320", "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": "Q01329-1.320.320", "start_pos": 320, "end_pos": 320, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "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": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "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": "ITKSLSSGSGSSIYSKLTKI", "down_seq": "QTLHVIGEETKSKGILNFDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Ser320" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q01329-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01329-1.306.306", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01329-1.308.308", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q01329-1.310.310", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01329-1.311.311", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01329-1.313.313", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.420.420", "start_pos": 420, "end_pos": 420, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ILQKYTLNKASHQGNTFFNN", "down_seq": "PKPISNTYSSVYSLMNSSNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser420" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.493.493", "start_pos": 493, "end_pos": 493, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "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": "SIVASRYTDLMNTYINSVPS", "down_seq": "SSSKRKSDDDDDGNDNEEVG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser493" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01329-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01329-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01329-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01329-1.500.500", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.494.494", "start_pos": 494, "end_pos": 494, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "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": "IVASRYTDLMNTYINSVPSS", "down_seq": "SSKRKSDDDDDGNDNEEVGN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser494" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01329-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01329-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01329-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01329-1.500.500", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.495.495", "start_pos": 495, "end_pos": 495, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "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": "VASRYTDLMNTYINSVPSSS", "down_seq": "SKRKSDDDDDGNDNEEVGND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser495" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q01329-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01329-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01329-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01329-1.500.500", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.496.496", "start_pos": 496, "end_pos": 496, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "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": "ASRYTDLMNTYINSVPSSSS", "down_seq": "KRKSDDDDDGNDNEEVGNDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser496" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q01329-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01329-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01329-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01329-1.500.500", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.500.500", "start_pos": 500, "end_pos": 500, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TDLMNTYINSVPSSSSSKRK", "down_seq": "DDDDDGNDNEEVGNDGPTAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser500" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q01329-1.493.493", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01329-1.494.494", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01329-1.495.495", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01329-1.496.496", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.553.553", "start_pos": 553, "end_pos": 553, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "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": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "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": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "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": "EEPEEPEDDDRMQKMLQEEE", "down_seq": "AQEISGDANKSTSAIKEIAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser553" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "Q01329-1.558.558", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01329-1.564.564", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.558.558", "start_pos": 558, "end_pos": 558, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PEDDDRMQKMLQEEESAQEI", "down_seq": "GDANKSTSAIKEIAPPFEPD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser558" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q01329-1.553.553", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01329-1.564.564", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.564.564", "start_pos": 564, "end_pos": 564, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MQKMLQEEESAQEISGDANK", "down_seq": "TSAIKEIAPPFEPDSLTQDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser564" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q01329-1.553.553", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01329-1.558.558", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01329-1.581.581", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01329-1.581.581", "start_pos": 581, "end_pos": 581, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "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": "ANKSTSAIKEIAPPFEPDSL", "down_seq": "QDEKLKYLSKLTKKLFELSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr581" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q01329-1.564.564", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01329-1.588.588", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01329-1.593.593", "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": "Q01329-1.588.588", "start_pos": 588, "end_pos": 588, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "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": "IKEIAPPFEPDSLTQDEKLK", "down_seq": "LSKLTKKLFELSGRQDTTRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr588" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q01329-1.581.581", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01329-1.593.593", "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": "Q01329-1.593.593", "start_pos": 593, "end_pos": 593, "uniprot_canonical_ac": "Q01329-1", "length": 785, "uniprot_id": "PTA1_YEAST", "protein_name": "Pre-tRNA-processing protein PTA1", "refseq_ac": "NP_009356", "refseq_name": "RNA-processing protein PTA1", "gene_name": "PTA1", "gene_names_uniprotkb": "PTA1; FUN39", "gene_names_refseq": "FUN39; PTA1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01329", "url": "https://www.uniprot.org/uniprotkb/Q01329" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329", "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": "PPFEPDSLTQDEKLKYLSKL", "down_seq": "KKLFELSGRQDTTRAKSSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000041", "url": "https://www.yeastgenome.org/locus/S000000041" }, { "database": "iPTMnet", "id": "Q01329", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01329" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr593" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "305", "end_pos": "305" }, { "start_pos": "306", "end_pos": "306" }, { "start_pos": "308", "end_pos": "308" }, { "start_pos": "310", "end_pos": "310" }, { "start_pos": "311", "end_pos": "311" }, { "start_pos": "313", "end_pos": "313" }, { "start_pos": "320", "end_pos": "320" }, { "start_pos": "378", "end_pos": "378" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "389", "end_pos": "389" }, { "start_pos": "390", "end_pos": "390" }, { "start_pos": "420", "end_pos": "420" }, { "start_pos": "493", "end_pos": "493" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "495", "end_pos": "495" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "553", "end_pos": "553" }, { "start_pos": "558", "end_pos": "558" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "581", "end_pos": "581" }, { "start_pos": "588", "end_pos": "588" }, { "start_pos": "593", "end_pos": "593" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01329-1.581.581", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01329-1.588.588", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1083.1083", "start_pos": 1083, "end_pos": 1083, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "GLY_001160", "url": "https://data.glygen.org/GLY_001160", "database": "GlyGen", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "KSLDSLLSPKNVASSRTEPS", "down_seq": "PSRPVPPDSSYEFIQDGLNG", "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": "Thr1083", "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr1083" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01389-1.1064.1064", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01389-1.1067.1067", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01389-1.1070.1070", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.1079.1079", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.1082.1082", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.1092.1092", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01389-1.1093.1093", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.1094.1094", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1430.1430", "start_pos": 1430, "end_pos": 1430, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389" }, { "database": "O-GlcNAc Atlas", "id": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389" } ], "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": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SQIGRNFLDACFEINPEKRP", "down_seq": "ANELLSHPFSEVNETFNFKS", "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": "Thr1430", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01389", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01389" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "Q01389-1.1436.1436", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01389-1.1440.1440", "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": "Q01389-1.1436.1436", "start_pos": 1436, "end_pos": 1436, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389" }, { "database": "O-GlcNAc Atlas", "id": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389" } ], "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": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FLDACFEINPEKRPTANELL", "down_seq": "HPFSEVNETFNFKSTRLAKF", "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": "Ser1436", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01389", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01389" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q01389-1.1430.1430", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.1440.1440", "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": "Q01389-1.1440.1440", "start_pos": 1440, "end_pos": 1440, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389" }, { "database": "O-GlcNAc Atlas", "id": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389" } ], "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": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CFEINPEKRPTANELLSHPF", "down_seq": "EVNETFNFKSTRLAKFIKSN", "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": "Ser1440", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01389", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01389" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q01389-1.1430.1430", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.1436.1436", "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": "Q01389-1.31.31", "start_pos": 31, "end_pos": 31, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389" }, { "database": "O-GlcNAc Atlas", "id": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AHTHSRSDSNSSVKFGHQPT", "down_seq": "SVASTKSSSKSPRATSRKSI", "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": "Ser31", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01389", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01389" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Ser31" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01389-1.32.32", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.35.35", "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": "Q01389-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389" }, { "database": "O-GlcNAc Atlas", "id": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389" } ], "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": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HTHSRSDSNSSVKFGHQPTS", "down_seq": "VASTKSSSKSPRATSRKSIY", "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": "Ser32", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01389", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01389" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01389-1.31.31", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.35.35", "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": "Q01389-1.35.35", "start_pos": 35, "end_pos": 35, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389" }, { "database": "O-GlcNAc Atlas", "id": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389" } ], "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": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRSDSNSSVKFGHQPTSSVA", "down_seq": "TKSSSKSPRATSRKSIYDDI", "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": "Ser35", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01389", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01389" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q01389-1.31.31", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.32.32", "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": "Q01389-1.652.652", "start_pos": 652, "end_pos": 652, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389" }, { "database": "O-GlcNAc Atlas", "id": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389" } ], "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": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KIYIKDQMKLQQKPKPAPLT", "down_seq": "ENNVPLKSVKSKSSMRSGTS", "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": "Ser652", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01389", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01389" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "Q01389-1.669.669", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.672.672", "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": "Q01389-1.772.772", "start_pos": 772, "end_pos": 772, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389" }, { "database": "O-GlcNAc Atlas", "id": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389" } ], "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": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LNLPDKGSKLNIPTPITENE", "down_seq": "KSSFQVLRKDEGTEIDFNHR", "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": "Ser772", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q01389", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q01389" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q01389-1.759.759", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01389-1.765.765", "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": "Q01389-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389" }, { "database": "O-GlcNAc Atlas", "id": "Q01389", "url": "https://oglcnac.org/atlas/detail/Q01389" } ], "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": "Q01389", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389", "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": "Q01389", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q01389" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "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": "Q01389-1.1119.1119", "start_pos": 1119, "end_pos": 1119, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dominant mutations in a gene encoding a putative protein kinase (BCK1) bypass the requirement for a Saccharomyces cerevisiae protein kinase C homolog.", "journal": "Molecular and cellular biology", "date": "1992", "authors": "Lee KS, Levin DE", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "reference": [ { "type": "PubMed", "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597" } ] } ], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DGLNGKNKPLNQAKTPKRTK", "down_seq": "IRTIAHEASLARKNSVKLKR", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "P", "comment": "In BCK1-19; Dominant active.", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "PubMed", "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01389-1.1120.1120", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.1128.1128", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01389-1.1134.1134", "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": "Q01389-1.1120.1120", "start_pos": 1120, "end_pos": 1120, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dominant mutations in a gene encoding a putative protein kinase (BCK1) bypass the requirement for a Saccharomyces cerevisiae protein kinase C homolog.", "journal": "Molecular and cellular biology", "date": "1992", "authors": "Lee KS, Levin DE", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "reference": [ { "type": "PubMed", "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597" } ] } ], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "I", "start_aa": "I", "up_seq": "GLNGKNKPLNQAKTPKRTKT", "down_seq": "RTIAHEASLARKNSVKLKRQ", "mutagenesis": [ { "sequence_org": "I", "sequence_mut": "K", "comment": "In BCK1-11; Dominant active.", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "PubMed", "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597" } ] }, { "sequence_org": "I", "sequence_mut": "T", "comment": "In BCK1-16; Dominant active.", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "PubMed", "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01389-1.1119.1119", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01389-1.1128.1128", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01389-1.1134.1134", "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": "Q01389-1.1146.1146", "start_pos": 1146, "end_pos": 1146, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dominant mutations in a gene encoding a putative protein kinase (BCK1) bypass the requirement for a Saccharomyces cerevisiae protein kinase C homolog.", "journal": "Molecular and cellular biology", "date": "1992", "authors": "Lee KS, Levin DE", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "reference": [ { "type": "PubMed", "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597" } ] } ], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "EASLARKNSVKLKRQNTKMW", "down_seq": "TRMVEVTENHMVSINKAKNS", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "V", "comment": "In BCK1-10; Dominant active.", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "PubMed", "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q01389-1.1128.1128", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01389-1.1134.1134", "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": "Q01389-1.1174.1174", "start_pos": 1174, "end_pos": 1174, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Dominant mutations in a gene encoding a putative protein kinase (BCK1) bypass the requirement for a Saccharomyces cerevisiae protein kinase C homolog.", "journal": "Molecular and cellular biology", "date": "1992", "authors": "Lee KS, Levin DE", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "reference": [ { "type": "PubMed", "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597" } ] } ], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "A", "start_aa": "A", "up_seq": "ENHMVSINKAKNSKGEYKEF", "down_seq": "WMKGEMIGKGSFGAVYLCLN", "mutagenesis": [ { "sequence_org": "A", "sequence_mut": "P", "comment": "In BCK1-20; Dominant active.", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "PubMed", "id": "1729597", "url": "https://glygen.org/publication/PubMed/1729597" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "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": "Q01389-1.1002.1002", "start_pos": 1002, "end_pos": 1002, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "IWSKKKTAPETNNENKKDEK", "down_seq": "DNSSTHSDEIFYDSQTQDKM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1002" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q01389-1.1005.1005", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.1006.1006", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.1007.1007", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.1009.1009", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1005.1005", "start_pos": 1005, "end_pos": 1005, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKKTAPETNNENKKDEKSDN", "down_seq": "STHSDEIFYDSQTQDKMERK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser1005" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q01389-1.1002.1002", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.1006.1006", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.1007.1007", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.1009.1009", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1006.1006", "start_pos": 1006, "end_pos": 1006, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKTAPETNNENKKDEKSDNS", "down_seq": "THSDEIFYDSQTQDKMERKM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser1006" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q01389-1.1002.1002", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.1005.1005", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.1007.1007", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.1009.1009", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1007.1007", "start_pos": 1007, "end_pos": 1007, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "KTAPETNNENKKDEKSDNSS", "down_seq": "HSDEIFYDSQTQDKMERKMT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr1007" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q01389-1.1002.1002", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.1005.1005", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.1006.1006", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.1009.1009", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1009.1009", "start_pos": 1009, "end_pos": 1009, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "APETNNENKKDEKSDNSSTH", "down_seq": "DEIFYDSQTQDKMERKMTFR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1009" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q01389-1.1002.1002", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.1005.1005", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.1006.1006", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.1007.1007", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1031.1031", "start_pos": 1031, "end_pos": 1031, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "EIFYDSQTQDKMERKMTFRP", "down_seq": "PEVVYQNLEKFFPRANLDKP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1031" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1058.1058", "start_pos": 1058, "end_pos": 1058, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "NLEKFFPRANLDKPITEGIA", "down_seq": "PTSPKSLDSLLSPKNVASSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "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": "Ser1058" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q01389-1.1060.1060", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.1061.1061", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.1064.1064", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.1067.1067", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.1070.1070", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1060.1060", "start_pos": 1060, "end_pos": 1060, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "EKFFPRANLDKPITEGIASP", "down_seq": "SPKSLDSLLSPKNVASSRTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1060" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q01389-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.1061.1061", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.1064.1064", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.1067.1067", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01389-1.1070.1070", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01389-1.1079.1079", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q01389-1.1061.1061", "start_pos": 1061, "end_pos": 1061, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "KFFPRANLDKPITEGIASPT", "down_seq": "PKSLDSLLSPKNVASSRTEP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "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": "Ser1061" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q01389-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.1060.1060", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.1064.1064", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.1067.1067", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.1070.1070", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.1079.1079", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q01389-1.1064.1064", "start_pos": 1064, "end_pos": 1064, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "PRANLDKPITEGIASPTSPK", "down_seq": "LDSLLSPKNVASSRTEPSTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "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": "Ser1064" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q01389-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.1060.1060", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.1061.1061", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.1067.1067", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.1070.1070", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01389-1.1079.1079", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.1082.1082", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01389-1.1083.1083", "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": "Q01389-1.1067.1067", "start_pos": 1067, "end_pos": 1067, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "NLDKPITEGIASPTSPKSLD", "down_seq": "LLSPKNVASSRTEPSTPSRP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1067" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01389-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01389-1.1060.1060", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01389-1.1061.1061", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.1064.1064", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.1070.1070", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.1079.1079", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01389-1.1082.1082", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01389-1.1083.1083", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1070.1070", "start_pos": 1070, "end_pos": 1070, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "KPITEGIASPTSPKSLDSLL", "down_seq": "PKNVASSRTEPSTPSRPVPP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1070" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01389-1.1058.1058", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q01389-1.1060.1060", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.1061.1061", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01389-1.1064.1064", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.1067.1067", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.1079.1079", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.1082.1082", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.1083.1083", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1079.1079", "start_pos": 1079, "end_pos": 1079, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "PTSPKSLDSLLSPKNVASSR", "down_seq": "EPSTPSRPVPPDSSYEFIQD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr1079" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01389-1.1060.1060", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q01389-1.1061.1061", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01389-1.1064.1064", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01389-1.1067.1067", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.1070.1070", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.1082.1082", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.1083.1083", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.1092.1092", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01389-1.1093.1093", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01389-1.1094.1094", "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": "Q01389-1.1082.1082", "start_pos": 1082, "end_pos": 1082, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "PKSLDSLLSPKNVASSRTEP", "down_seq": "TPSRPVPPDSSYEFIQDGLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "Ser1082" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q01389-1.1064.1064", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01389-1.1067.1067", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01389-1.1070.1070", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.1079.1079", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.1083.1083", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01389-1.1092.1092", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.1093.1093", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.1094.1094", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1092.1092", "start_pos": 1092, "end_pos": 1092, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KNVASSRTEPSTPSRPVPPD", "down_seq": "SYEFIQDGLNGKNKPLNQAK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Ser1092" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q01389-1.1079.1079", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q01389-1.1082.1082", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.1083.1083", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.1093.1093", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.1094.1094", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1093.1093", "start_pos": 1093, "end_pos": 1093, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NVASSRTEPSTPSRPVPPDS", "down_seq": "YEFIQDGLNGKNKPLNQAKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser1093" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q01389-1.1079.1079", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01389-1.1082.1082", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q01389-1.1083.1083", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.1092.1092", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.1094.1094", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1094.1094", "start_pos": 1094, "end_pos": 1094, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "VASSRTEPSTPSRPVPPDSS", "down_seq": "EFIQDGLNGKNKPLNQAKTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr1094" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q01389-1.1079.1079", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01389-1.1082.1082", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01389-1.1083.1083", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.1092.1092", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.1093.1093", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1128.1128", "start_pos": 1128, "end_pos": 1128, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "LNQAKTPKRTKTIRTIAHEA", "down_seq": "LARKNSVKLKRQNTKMWGTR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "Ser1128" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01389-1.1119.1119", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q01389-1.1120.1120", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.1134.1134", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.1146.1146", "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": "Q01389-1.1134.1134", "start_pos": 1134, "end_pos": 1134, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PKRTKTIRTIAHEASLARKN", "down_seq": "VKLKRQNTKMWGTRMVEVTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine; by PKC", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "site_lbl": "Ser1134" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q01389-1.1119.1119", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01389-1.1120.1120", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01389-1.1128.1128", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.1146.1146", "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": 0 } ], "sort_fields": [] } ] }, { "id": "Q01389-1.113.113", "start_pos": 113, "end_pos": 113, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GTLENPTSFTNSSYKNDNGP", "down_seq": "SLSDSRKSSGGNSVNSLSFD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Ser113" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01389-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01389-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.122.122", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.114.114", "start_pos": 114, "end_pos": 114, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "TLENPTSFTNSSYKNDNGPS", "down_seq": "LSDSRKSSGGNSVNSLSFDK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser114" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01389-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01389-1.122.122", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.118.118", "start_pos": 118, "end_pos": 118, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "PTSFTNSSYKNDNGPSSLSD", "down_seq": "RKSSGGNSVNSLSFDKLILS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser118" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q01389-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.138.138", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1211.1211", "start_pos": 1211, "end_pos": 1211, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "LCLNVTTGEMMAVKQVEVPK", "down_seq": "SSQNEAILSTVEALRSEVST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Tyr1211" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01389-1.1212.1212", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1212.1212", "start_pos": 1212, "end_pos": 1212, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CLNVTTGEMMAVKQVEVPKY", "down_seq": "SQNEAILSTVEALRSEVSTL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser1212" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01389-1.1211.1211", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.121.121", "start_pos": 121, "end_pos": 121, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "FTNSSYKNDNGPSSLSDSRK", "down_seq": "SGGNSVNSLSFDKLILSWDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser121" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q01389-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01389-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01389-1.138.138", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.122.122", "start_pos": 122, "end_pos": 122, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "TNSSYKNDNGPSSLSDSRKS", "down_seq": "GGNSVNSLSFDKLILSWDPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser122" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01389-1.113.113", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q01389-1.114.114", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01389-1.138.138", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1254.1254", "start_pos": 1254, "end_pos": 1254, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DLDHLNIVQYLGFENKNNIY", "down_seq": "LFLEYVAGGSVGSLIRMYGR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Ser1254" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "Q01389-1.1272.1272", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1272.1272", "start_pos": 1272, "end_pos": 1272, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "IYSLFLEYVAGGSVGSLIRM", "down_seq": "GRFDEPLIKHLTTQVLKGLA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Tyr1272" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q01389-1.1254.1254", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.1284.1284", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1284.1284", "start_pos": 1284, "end_pos": 1284, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SVGSLIRMYGRFDEPLIKHL", "down_seq": "TQVLKGLAYLHSKGILHRDM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Thr1284" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01389-1.1272.1272", "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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1328.1328", "start_pos": 1328, "end_pos": 1328, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NLLLDQDGICKISDFGISRK", "down_seq": "KDIYSNSDMTMRGTVFWMAP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Ser1328" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "Q01389-1.1333.1333", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.1335.1335", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01389-1.1338.1338", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1333.1333", "start_pos": 1333, "end_pos": 1333, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "QDGICKISDFGISRKSKDIY", "down_seq": "NSDMTMRGTVFWMAPEMVDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1333" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q01389-1.1328.1328", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.1335.1335", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.1338.1338", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1335.1335", "start_pos": 1335, "end_pos": 1335, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "GICKISDFGISRKSKDIYSN", "down_seq": "DMTMRGTVFWMAPEMVDTKQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "Ser1335" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q01389-1.1328.1328", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.1333.1333", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.1338.1338", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1338.1338", "start_pos": 1338, "end_pos": 1338, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "KISDFGISRKSKDIYSNSDM", "down_seq": "MRGTVFWMAPEMVDTKQGYS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr1338" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q01389-1.1328.1328", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01389-1.1333.1333", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.1335.1335", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.138.138", "start_pos": 138, "end_pos": 138, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRKSSGGNSVNSLSFDKLIL", "down_seq": "WDPTDPDEWTMHRVTSWFKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Ser138" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.118.118", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q01389-1.121.121", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01389-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01389-1.148.148", "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": "Q01389-1.1471.1471", "start_pos": 1471, "end_pos": 1471, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "TRLAKFIKSNDKLNSSKLRI", "down_seq": "SQENKTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr1471" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01389-1.1472.1472", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.1477.1477", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1472.1472", "start_pos": 1472, "end_pos": 1472, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "RLAKFIKSNDKLNSSKLRIT", "down_seq": "QENKTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "Ser1472" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01389-1.1471.1471", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.1477.1477", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.1477.1477", "start_pos": 1477, "end_pos": 1477, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "IKSNDKLNSSKLRITSQENK", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1477" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q01389-1.1471.1471", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01389-1.1472.1472", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.148.148", "start_pos": 148, "end_pos": 148, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "NSLSFDKLILSWDPTDPDEW", "down_seq": "MHRVTSWFKFHDFPESWILF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Thr148" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q01389-1.138.138", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.236.236", "start_pos": 236, "end_pos": 236, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KNVTNSHIRQKSASKLKSSR", "down_seq": "SSESIKSKLKNSKSQEDISN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser236" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q01389-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01389-1.250.250", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.237.237", "start_pos": 237, "end_pos": 237, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "NVTNSHIRQKSASKLKSSRS", "down_seq": "SESIKSKLKNSKSQEDISNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser237" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q01389-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.250.250", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.240.240", "start_pos": 240, "end_pos": 240, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "NSHIRQKSASKLKSSRSSSE", "down_seq": "IKSKLKNSKSQEDISNSRST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser240" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q01389-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01389-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01389-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01389-1.259.259", "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": "Q01389-1.248.248", "start_pos": 248, "end_pos": 248, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASKLKSSRSSSESIKSKLKN", "down_seq": "KSQEDISNSRSTSESALSPT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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" } ], "site_lbl": "Ser248" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01389-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01389-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q01389-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.250.250", "start_pos": 250, "end_pos": 250, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "KLKSSRSSSESIKSKLKNSK", "down_seq": "QEDISNSRSTSESALSPTKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "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": "Ser250" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q01389-1.236.236", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01389-1.237.237", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q01389-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01389-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.268.268", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.270.270", "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": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.259.259", "start_pos": 259, "end_pos": 259, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "ESIKSKLKNSKSQEDISNSR", "down_seq": "TSESALSPTKSGPSKTDEKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser259" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01389-1.240.240", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01389-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.268.268", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.270.270", "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": "Q01389-1.261.261", "start_pos": 261, "end_pos": 261, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "IKSKLKNSKSQEDISNSRST", "down_seq": "ESALSPTKSGPSKTDEKNFL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "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": "Ser261" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q01389-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01389-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.268.268", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.270.270", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "KNSKSQEDISNSRSTSESAL", "down_seq": "PTKSGPSKTDEKNFLHSTST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "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": "Ser266" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q01389-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01389-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01389-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01389-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.268.268", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.270.270", "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": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.268.268", "start_pos": 268, "end_pos": 268, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "SKSQEDISNSRSTSESALSP", "down_seq": "KSGPSKTDEKNFLHSTSTHQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr268" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.248.248", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q01389-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01389-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.270.270", "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": "Q01389-1.270.270", "start_pos": 270, "end_pos": 270, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SQEDISNSRSTSESALSPTK", "down_seq": "GPSKTDEKNFLHSTSTHQKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser270" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.250.250", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01389-1.259.259", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.261.261", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.266.266", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.268.268", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.292.292", "start_pos": 292, "end_pos": 292, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "PSKTDEKNFLHSTSTHQKTK", "down_seq": "ASSLYRRSFISLRGSSSSNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser292" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.317.317", "start_pos": 317, "end_pos": 317, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "YRRSFISLRGSSSSNASSAK", "down_seq": "PSNIKLSIPARPHSIIESNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser317" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "Q01389-1.331.331", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.331.331", "start_pos": 331, "end_pos": 331, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NASSAKSPSNIKLSIPARPH", "down_seq": "IIESNSTLTKSASPPASPSY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Ser331" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q01389-1.317.317", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01389-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01389-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.351.351", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.342.342", "start_pos": 342, "end_pos": 342, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KLSIPARPHSIIESNSTLTK", "down_seq": "ASPPASPSYPSIFRRHHKSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser342" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q01389-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01389-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.353.353", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.344.344", "start_pos": 344, "end_pos": 344, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SIPARPHSIIESNSTLTKSA", "down_seq": "PPASPSYPSIFRRHHKSSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser344" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q01389-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.353.353", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q01389-1.348.348", "start_pos": 348, "end_pos": 348, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RPHSIIESNSTLTKSASPPA", "down_seq": "PSYPSIFRRHHKSSSSESSL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser348" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q01389-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01389-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01389-1.367.367", "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": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.350.350", "start_pos": 350, "end_pos": 350, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HSIIESNSTLTKSASPPASP", "down_seq": "YPSIFRRHHKSSSSESSLLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser350" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01389-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q01389-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01389-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01389-1.367.367", "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": "Q01389-1.351.351", "start_pos": 351, "end_pos": 351, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "SIIESNSTLTKSASPPASPS", "down_seq": "PSIFRRHHKSSSSESSLLNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr351" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.331.331", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01389-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.353.353", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01389-1.367.367", "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": "Q01389-1.353.353", "start_pos": 353, "end_pos": 353, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IESNSTLTKSASPPASPSYP", "down_seq": "IFRRHHKSSSSESSLLNSLF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Ser353" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q01389-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.344.344", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01389-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01389-1.367.367", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.367.367", "start_pos": 367, "end_pos": 367, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "ASPSYPSIFRRHHKSSSSES", "down_seq": "LLNSLFGSGIGEEAPTKPNP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser367" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01389-1.348.348", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q01389-1.350.350", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01389-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01389-1.353.353", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.407.407", "start_pos": 407, "end_pos": 407, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "PQGHSLSSENLAKGKSKHYE", "down_seq": "NVSSPLKQSSLPTSDDKGNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr407" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "Q01389-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.416.416", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.411.411", "start_pos": 411, "end_pos": 411, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "SLSSENLAKGKSKHYETNVS", "down_seq": "PLKQSSLPTSDDKGNLWNKF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "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": "Ser411" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q01389-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.416.416", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.416.416", "start_pos": 416, "end_pos": 416, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NLAKGKSKHYETNVSSPLKQ", "down_seq": "SLPTSDDKGNLWNKFKRKSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser416" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01389-1.407.407", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01389-1.411.411", "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": "Q01389-1.476.476", "start_pos": 476, "end_pos": 476, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LKSNSSTATLTVQTADVNIP", "down_seq": "PSSSPPPIPKTANRSLEVIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser476" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q01389-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.478.478", "start_pos": 478, "end_pos": 478, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNSSTATLTVQTADVNIPSP", "down_seq": "SSPPPIPKTANRSLEVISTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser478" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q01389-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.479.479", "start_pos": 479, "end_pos": 479, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSSTATLTVQTADVNIPSPS", "down_seq": "SPPPIPKTANRSLEVISTED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser479" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q01389-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.480.480", "start_pos": 480, "end_pos": 480, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSTATLTVQTADVNIPSPSS", "down_seq": "PPPIPKTANRSLEVISTEDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser480" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q01389-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.500.500", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.487.487", "start_pos": 487, "end_pos": 487, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "VQTADVNIPSPSSSPPPIPK", "down_seq": "ANRSLEVISTEDTPKISSTT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr487" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q01389-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q01389-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01389-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.505.505", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01389-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.507.507", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.491.491", "start_pos": 491, "end_pos": 491, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "DVNIPSPSSSPPPIPKTANR", "down_seq": "LEVISTEDTPKISSTTASFK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "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": "Ser491" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q01389-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01389-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01389-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01389-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01389-1.505.505", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01389-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01389-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.509.509", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q01389-1.496.496", "start_pos": 496, "end_pos": 496, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPSSSPPPIPKTANRSLEVI", "down_seq": "TEDTPKISSTTASFKETYPD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser496" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.476.476", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q01389-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q01389-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01389-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.505.505", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01389-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.509.509", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.497.497", "start_pos": 497, "end_pos": 497, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "PSSSPPPIPKTANRSLEVIS", "down_seq": "EDTPKISSTTASFKETYPDC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr497" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01389-1.478.478", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q01389-1.479.479", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q01389-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01389-1.505.505", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01389-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.509.509", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.500.500", "start_pos": 500, "end_pos": 500, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "SPPPIPKTANRSLEVISTED", "down_seq": "PKISSTTASFKETYPDCINP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr500" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.480.480", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.505.505", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.509.509", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.505.505", "start_pos": 505, "end_pos": 505, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "PKTANRSLEVISTEDTPKIS", "down_seq": "TTASFKETYPDCINPDKTVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser505" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01389-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.509.509", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.506.506", "start_pos": 506, "end_pos": 506, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "KTANRSLEVISTEDTPKISS", "down_seq": "TASFKETYPDCINPDKTVPV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr506" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01389-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.505.505", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.509.509", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.507.507", "start_pos": 507, "end_pos": 507, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "TANRSLEVISTEDTPKISST", "down_seq": "ASFKETYPDCINPDKTVPVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr507" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.487.487", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01389-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.505.505", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.509.509", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.509.509", "start_pos": 509, "end_pos": 509, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "NRSLEVISTEDTPKISSTTA", "down_seq": "FKETYPDCINPDKTVPVPVN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser509" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q01389-1.491.491", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01389-1.496.496", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01389-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01389-1.500.500", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.505.505", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.506.506", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.507.507", "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": "Q01389-1.669.669", "start_pos": 669, "end_pos": 669, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PLTSENNVPLKSVKSKSSMR", "down_seq": "GTSSLIASTDDVSIVTSSSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser669" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q01389-1.652.652", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.672.672", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.673.673", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01389-1.677.677", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.678.678", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.672.672", "start_pos": 672, "end_pos": 672, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SENNVPLKSVKSKSSMRSGT", "down_seq": "SLIASTDDVSIVTSSSDITS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser672" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.652.652", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.669.669", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.673.673", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.677.677", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.678.678", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.673.673", "start_pos": 673, "end_pos": 673, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ENNVPLKSVKSKSSMRSGTS", "down_seq": "LIASTDDVSIVTSSSDITSF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser673" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q01389-1.669.669", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.672.672", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01389-1.677.677", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01389-1.678.678", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.677.677", "start_pos": 677, "end_pos": 677, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PLKSVKSKSSMRSGTSSLIA", "down_seq": "TDDVSIVTSSSDITSFDEHA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Ser677" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q01389-1.669.669", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01389-1.672.672", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01389-1.673.673", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.678.678", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.678.678", "start_pos": 678, "end_pos": 678, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "LKSVKSKSSMRSGTSSLIAS", "down_seq": "DDVSIVTSSSDITSFDEHAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ], "site_lbl": "Thr678" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01389-1.669.669", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01389-1.672.672", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01389-1.673.673", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.677.677", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.698.698", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.698.698", "start_pos": 698, "end_pos": 698, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TDDVSIVTSSSDITSFDEHA", "down_seq": "GSGRRYPQTPSYYYDRVSNT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser698" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.678.678", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01389-1.707.707", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.718.718", "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": "Q01389-1.707.707", "start_pos": 707, "end_pos": 707, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "SSDITSFDEHASGSGRRYPQ", "down_seq": "PSYYYDRVSNTNPTEELNYW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr707" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01389-1.698.698", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01389-1.718.718", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01389-1.721.721", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.718.718", "start_pos": 718, "end_pos": 718, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "SGSGRRYPQTPSYYYDRVSN", "down_seq": "NPTEELNYWNIKEVLSHEEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Thr718" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.698.698", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01389-1.707.707", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q01389-1.721.721", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q01389-1.734.734", "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": "Q01389-1.721.721", "start_pos": 721, "end_pos": 721, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "GRRYPQTPSYYYDRVSNTNP", "down_seq": "EELNYWNIKEVLSHEENAPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Thr721" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q01389-1.707.707", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q01389-1.718.718", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.734.734", "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": "Q01389-1.734.734", "start_pos": 734, "end_pos": 734, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "RVSNTNPTEELNYWNIKEVL", "down_seq": "HEENAPKMVFKTSPKLELNL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser734" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q01389-1.718.718", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01389-1.721.721", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.746.746", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.747.747", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.746.746", "start_pos": 746, "end_pos": 746, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "YWNIKEVLSHEENAPKMVFK", "down_seq": "SPKLELNLPDKGSKLNIPTP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr746" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01389-1.734.734", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.747.747", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.759.759", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01389-1.765.765", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.747.747", "start_pos": 747, "end_pos": 747, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "WNIKEVLSHEENAPKMVFKT", "down_seq": "PKLELNLPDKGSKLNIPTPI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser747" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q01389-1.734.734", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.746.746", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01389-1.759.759", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.765.765", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q01389-1.759.759", "start_pos": 759, "end_pos": 759, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "APKMVFKTSPKLELNLPDKG", "down_seq": "KLNIPTPITENESKSSFQVL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser759" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q01389-1.746.746", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q01389-1.747.747", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.765.765", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01389-1.772.772", "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": "Q01389-1.765.765", "start_pos": 765, "end_pos": 765, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Identifying protein kinase-specific effectors of the osmostress response in yeast.", "journal": "Science signaling", "date": "2017-03-07", "authors": "Romanov Natalie, Hollenstein David Maria, Janschitz Marion, Ammerer Gustav, Anrather Dorothea, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" } ] }, { "title": "Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages.", "journal": "Cell communication and signaling : CCS", "date": "2019-06-17", "authors": "Janschitz Marion, Romanov Natalie, Varnavides Gina, Hollenstein David Maria, G\u00e9recov\u00e1 Gabriela, Ammerer Gustav, Hartl Markus, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KTSPKLELNLPDKGSKLNIP", "down_seq": "PITENESKSSFQVLRKDEGT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" }, { "database": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" } ], "site_lbl": "Thr765" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01389-1.746.746", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q01389-1.747.747", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01389-1.759.759", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.772.772", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.795.795", "start_pos": 795, "end_pos": 795, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "SFQVLRKDEGTEIDFNHRRE", "down_seq": "PYTKPELAPKREAPKPPANT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser795" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q01389-1.797.797", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01389-1.815.815", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.797.797", "start_pos": 797, "end_pos": 797, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "QVLRKDEGTEIDFNHRRESP", "down_seq": "TKPELAPKREAPKPPANTSP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Tyr797" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q01389-1.795.795", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01389-1.815.815", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q01389-1.816.816", "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": "Q01389-1.815.815", "start_pos": 815, "end_pos": 815, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "SPYTKPELAPKREAPKPPAN", "down_seq": "SPQRTLSTSKQNKPIRLVRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr815" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01389-1.795.795", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q01389-1.797.797", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01389-1.816.816", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01389-1.822.822", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.816.816", "start_pos": 816, "end_pos": 816, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "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": "PYTKPELAPKREAPKPPANT", "down_seq": "PQRTLSTSKQNKPIRLVRAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P00546-1", "kinase_gene_name": "CDC28", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser816" }, { "kinase_uniprot_canonical_ac": "P24869-1", "kinase_gene_name": "CLB2", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ], "site_lbl": "Ser816" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "Ser816" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01389-1.797.797", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01389-1.815.815", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.822.822", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_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": "Q01389-1.822.822", "start_pos": 822, "end_pos": 822, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "LAPKREAPKPPANTSPQRTL", "down_seq": "TSKQNKPIRLVRASTKISRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser822" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q01389-1.815.815", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01389-1.816.816", "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": "Q01389-1.860.860", "start_pos": 860, "end_pos": 860, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SRSKRSKPLPPQLLSSPIEA", "down_seq": "SSSPDSLTSSYTPASTHVLI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" } ], "site_lbl": "Ser860" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.900.900", "start_pos": 900, "end_pos": 900, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "IPQPYKGANDVMRRLKTDQD", "down_seq": "TSTSPSLKMKQKVNRSNSTV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser900" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "Q01389-1.904.904", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01389-1.906.906", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01389-1.904.904", "start_pos": 904, "end_pos": 904, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "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": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "YKGANDVMRRLKTDQDSTST", "down_seq": "PSLKMKQKVNRSNSTVSTSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "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": "Ser904" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q01389-1.900.900", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01389-1.906.906", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q01389-1.906.906", "start_pos": 906, "end_pos": 906, "uniprot_canonical_ac": "Q01389-1", "length": 1478, "uniprot_id": "BCK1_YEAST", "protein_name": "Serine/threonine-protein kinase BCK1/SLK1/SSP31", "refseq_ac": "NP_012440", "refseq_name": "mitogen-activated protein kinase kinase kinase BCK1", "gene_name": "BCK1", "gene_names_uniprotkb": "BCK1; J0906; LAS3; SLK1; SSP31", "gene_names_refseq": "BCK1; LAS3; SAP3; SLK1; SSP31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01389", "url": "https://www.uniprot.org/uniprotkb/Q01389" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389", "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": "GANDVMRRLKTDQDSTSTSP", "down_seq": "LKMKQKVNRSNSTVSTSNSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000003631", "url": "https://www.yeastgenome.org/locus/S000003631" }, { "database": "iPTMnet", "id": "Q01389", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01389" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser906" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1430", "end_pos": "1430" }, { "start_pos": "1436", "end_pos": "1436" }, { "start_pos": "1440", "end_pos": "1440" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "35", "end_pos": "35" }, { "start_pos": "652", "end_pos": "652" }, { "start_pos": "772", "end_pos": "772" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "1119", "end_pos": "1119" }, { "start_pos": "1120", "end_pos": "1120" }, { "start_pos": "1146", "end_pos": "1146" }, { "start_pos": "1174", "end_pos": "1174" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1002", "end_pos": "1002" }, { "start_pos": "1005", "end_pos": "1005" }, { "start_pos": "1006", "end_pos": "1006" }, { "start_pos": "1007", "end_pos": "1007" }, { "start_pos": "1009", "end_pos": "1009" }, { "start_pos": "1031", "end_pos": "1031" }, { "start_pos": "1058", "end_pos": "1058" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1061", "end_pos": "1061" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1067", "end_pos": "1067" }, { "start_pos": "1070", "end_pos": "1070" }, { "start_pos": "1079", "end_pos": "1079" }, { "start_pos": "1082", "end_pos": "1082" }, { "start_pos": "1083", "end_pos": "1083" }, { "start_pos": "1092", "end_pos": "1092" }, { "start_pos": "1093", "end_pos": "1093" }, { "start_pos": "1094", "end_pos": "1094" }, { "start_pos": "1128", "end_pos": "1128" }, { "start_pos": "1134", "end_pos": "1134" }, { "start_pos": "113", "end_pos": "113" }, { "start_pos": "114", "end_pos": "114" }, { "start_pos": "118", "end_pos": "118" }, { "start_pos": "1211", "end_pos": "1211" }, { "start_pos": "1212", "end_pos": "1212" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "1254", "end_pos": "1254" }, { "start_pos": "1272", "end_pos": "1272" }, { "start_pos": "1284", "end_pos": "1284" }, { "start_pos": "1328", "end_pos": "1328" }, { "start_pos": "1333", "end_pos": "1333" }, { "start_pos": "1335", "end_pos": "1335" }, { "start_pos": "1338", "end_pos": "1338" }, { "start_pos": "138", "end_pos": "138" }, { "start_pos": "1471", "end_pos": "1471" }, { "start_pos": "1472", "end_pos": "1472" }, { "start_pos": "1477", "end_pos": "1477" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "236", "end_pos": "236" }, { "start_pos": "237", "end_pos": "237" }, { "start_pos": "240", "end_pos": "240" }, { "start_pos": "248", "end_pos": "248" }, { "start_pos": "250", "end_pos": "250" }, { "start_pos": "259", "end_pos": "259" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "292", "end_pos": "292" }, { "start_pos": "317", "end_pos": "317" }, { "start_pos": "31", "end_pos": "31" }, { "start_pos": "331", "end_pos": "331" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "344", "end_pos": "344" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "351", "end_pos": "351" }, { "start_pos": "353", "end_pos": "353" }, { "start_pos": "367", "end_pos": "367" }, { "start_pos": "407", "end_pos": "407" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "416", "end_pos": "416" }, { "start_pos": "476", "end_pos": "476" }, { "start_pos": "478", "end_pos": "478" }, { "start_pos": "479", "end_pos": "479" }, { "start_pos": "480", "end_pos": "480" }, { "start_pos": "487", "end_pos": "487" }, { "start_pos": "491", "end_pos": "491" }, { "start_pos": "496", "end_pos": "496" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "500", "end_pos": "500" }, { "start_pos": "505", "end_pos": "505" }, { "start_pos": "506", "end_pos": "506" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "509", "end_pos": "509" }, { "start_pos": "669", "end_pos": "669" }, { "start_pos": "672", "end_pos": "672" }, { "start_pos": "673", "end_pos": "673" }, { "start_pos": "677", "end_pos": "677" }, { "start_pos": "678", "end_pos": "678" }, { "start_pos": "698", "end_pos": "698" }, { "start_pos": "707", "end_pos": "707" }, { "start_pos": "718", "end_pos": "718" }, { "start_pos": "721", "end_pos": "721" }, { "start_pos": "734", "end_pos": "734" }, { "start_pos": "746", "end_pos": "746" }, { "start_pos": "747", "end_pos": "747" }, { "start_pos": "759", "end_pos": "759" }, { "start_pos": "765", "end_pos": "765" }, { "start_pos": "795", "end_pos": "795" }, { "start_pos": "797", "end_pos": "797" }, { "start_pos": "815", "end_pos": "815" }, { "start_pos": "816", "end_pos": "816" }, { "start_pos": "822", "end_pos": "822" }, { "start_pos": "860", "end_pos": "860" }, { "start_pos": "900", "end_pos": "900" }, { "start_pos": "904", "end_pos": "904" }, { "start_pos": "906", "end_pos": "906" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q01389-1.900.900", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01389-1.904.904", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.123.123", "start_pos": 123, "end_pos": 123, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "SSTNPMGIPTNRFNKNTVEL", "down_seq": "QHSPSPVMTTNKTDTEEKRQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Tyr123" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q01448-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01448-1.128.128", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01448-1.132.132", "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": "Q01448-1.126.126", "start_pos": 126, "end_pos": 126, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "NPMGIPTNRFNKNTVELYQH", "down_seq": "PSPVMTTNKTDTEEKRQNNR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser126" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q01448-1.123.123", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01448-1.128.128", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01448-1.132.132", "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": "Q01448-1.128.128", "start_pos": 128, "end_pos": 128, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "MGIPTNRFNKNTVELYQHSP", "down_seq": "PVMTTNKTDTEEKRQNNRNM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser128" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q01448-1.123.123", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01448-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01448-1.132.132", "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": "Q01448-1.132.132", "start_pos": 132, "end_pos": 132, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "TNRFNKNTVELYQHSPSPVM", "down_seq": "TNKTDTEEKRQNNRNMDNKN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr132" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01448-1.123.123", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01448-1.126.126", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01448-1.128.128", "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": "Q01448-1.153.153", "start_pos": 153, "end_pos": 153, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "TNKTDTEEKRQNNRNMDNKN", "down_seq": "PERGSSSFAAKQLKISSLLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "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": "Thr153" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.203.203", "start_pos": 203, "end_pos": 203, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "LHINDTNGNKNSNAASNNIP", "down_seq": "AYAELHTEGNSIESLIKPPS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser203" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "Q01448-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01448-1.223.223", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.214.214", "start_pos": 214, "end_pos": 214, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SNAASNNIPSAYAELHTEGN", "down_seq": "IESLIKPPSSPRNKSLTPKV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser214" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q01448-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01448-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q01448-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01448-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q01448-1.231.231", "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": "Q01448-1.223.223", "start_pos": 223, "end_pos": 223, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SAYAELHTEGNSIESLIKPP", "down_seq": "SPRNKSLTPKVILPTQNMDG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser223" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01448-1.203.203", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01448-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01448-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01448-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q01448-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01448-1.238.238", "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": "Q01448-1.224.224", "start_pos": 224, "end_pos": 224, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AYAELHTEGNSIESLIKPPS", "down_seq": "PRNKSLTPKVILPTQNMDGT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser224" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q01448-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01448-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01448-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01448-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01448-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01448-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.229.229", "start_pos": 229, "end_pos": 229, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HTEGNSIESLIKPPSSPRNK", "down_seq": "LTPKVILPTQNMDGTIAKDP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser229" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q01448-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01448-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01448-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01448-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01448-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q01448-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.231.231", "start_pos": 231, "end_pos": 231, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "EGNSIESLIKPPSSPRNKSL", "down_seq": "PKVILPTQNMDGTIAKDPHL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr231" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q01448-1.214.214", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q01448-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01448-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01448-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01448-1.238.238", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q01448-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.238.238", "start_pos": 238, "end_pos": 238, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "LIKPPSSPRNKSLTPKVILP", "down_seq": "QNMDGTIAKDPHLGDNTPGI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr238" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q01448-1.223.223", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q01448-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01448-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q01448-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q01448-1.244.244", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.244.244", "start_pos": 244, "end_pos": 244, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "SPRNKSLTPKVILPTQNMDG", "down_seq": "IAKDPHLGDNTPGILIAKTS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr244" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01448-1.224.224", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q01448-1.229.229", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q01448-1.231.231", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q01448-1.238.238", "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": "Q01448-1.265.265", "start_pos": 265, "end_pos": 265, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "IAKDPHLGDNTPGILIAKTS", "down_seq": "PVNLDVESTAQSLGKFNKST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser265" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "Q01448-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01448-1.285.285", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.284.284", "start_pos": 284, "end_pos": 284, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "SSPVNLDVESTAQSLGKFNK", "down_seq": "TNSLKAALTKAPAEKVSLKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser284" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q01448-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q01448-1.285.285", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.285.285", "start_pos": 285, "end_pos": 285, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "SPVNLDVESTAQSLGKFNKS", "down_seq": "NSLKAALTKAPAEKVSLKRS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr285" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01448-1.265.265", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q01448-1.284.284", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01448-1.305.305", "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": "Q01448-1.305.305", "start_pos": 305, "end_pos": 305, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "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": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TNSLKAALTKAPAEKVSLKR", "down_seq": "ISSVTNSDSNISSSKKPTSE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "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" }, { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "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": "Ser305" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01448-1.285.285", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01448-1.307.307", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01448-1.312.312", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.307.307", "start_pos": 307, "end_pos": 307, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "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" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SLKAALTKAPAEKVSLKRSI", "down_seq": "SVTNSDSNISSSKKPTSEKA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "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" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser307" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q01448-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q01448-1.312.312", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.312.312", "start_pos": 312, "end_pos": 312, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "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": "LTKAPAEKVSLKRSISSVTN", "down_seq": "DSNISSSKKPTSEKAKKSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "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": "Ser312" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q01448-1.305.305", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q01448-1.307.307", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q01448-1.330.330", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q01448-1.332.332", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.330.330", "start_pos": 330, "end_pos": 330, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TNSDSNISSSKKPTSEKAKK", "down_seq": "SSASAILPKPTTTKTSKKAA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser330" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q01448-1.312.312", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01448-1.332.332", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.332.332", "start_pos": 332, "end_pos": 332, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "SDSNISSSKKPTSEKAKKSS", "down_seq": "ASAILPKPTTTKTSKKAASN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "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": "Ser332" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q01448-1.312.312", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01448-1.330.330", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.388.388", "start_pos": 388, "end_pos": 388, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "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": "SAIKKESNAGSKLNTVKKEN", "down_seq": "SLSSIKATEKEKDKGGNSTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "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": "Ser388" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SSGKMQTQTDTNAEVLNTDN", "down_seq": "IKKETGSDSEDLFNKFSNKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33502312", "url": "https://glygen.org/publication/PubMed/33502312" } ], "site_lbl": "Ser40" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "Q01448-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q01448-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01448-1.49.49", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.421.421", "start_pos": 421, "end_pos": 421, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Rsp5/Nedd4 is the main ubiquitin ligase that targets cytosolic misfolded proteins following heat stress.", "journal": "Nature cell biology", "date": "2014-12", "authors": "Fang Nancy N, Chan Gerard T, Zhu Mang, Comyn Sophie A, Persaud Avinash, Deshaies Raymond J, Rotin Daniela, Gsponer Joerg, Mayor Thibault", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "25344756", "url": "https://glygen.org/publication/PubMed/25344756" } ] }, { "title": "Phosphoproteome Response to Dithiothreitol Reveals Unique Versus Shared Features of Saccharomyces cerevisiae Stress Responses.", "journal": "Journal of proteome research", "date": "2020-08-07", "authors": "MacGilvray Matthew E, Shishkova Evgenia, Place Michael, Wagner Ellen R, Coon Joshua J, Gasch Audrey P", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "25344756", "url": "https://glygen.org/publication/PubMed/25344756", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DKGGNSTEAKNSTSNVRKEP", "down_seq": "AKSPKRLVAAPTVSPPKILQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "25344756", "url": "https://glygen.org/publication/PubMed/25344756" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Thr421" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q01448-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q01448-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q01448-1.435.435", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.424.424", "start_pos": 424, "end_pos": 424, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "GNSTEAKNSTSNVRKEPTAK", "down_seq": "PKRLVAAPTVSPPKILQTAE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser424" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q01448-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q01448-1.433.433", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q01448-1.435.435", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.433.433", "start_pos": 433, "end_pos": 433, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "T", "start_aa": "T", "up_seq": "TSNVRKEPTAKSPKRLVAAP", "down_seq": "VSPPKILQTAETKAKEPSIL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "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": "Thr433" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q01448-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q01448-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01448-1.435.435", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.435.435", "start_pos": 435, "end_pos": 435, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NVRKEPTAKSPKRLVAAPTV", "down_seq": "PPKILQTAETKAKEPSILID", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "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": "Ser435" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q01448-1.421.421", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q01448-1.424.424", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01448-1.433.433", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.45.45", "start_pos": 45, "end_pos": 45, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "QTQTDTNAEVLNTDNSIKKE", "down_seq": "GSDSEDLFNKFSNKKTNRKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr45" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q01448-1.40.40", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01448-1.47.47", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q01448-1.49.49", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448", "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QTDTNAEVLNTDNSIKKETG", "down_seq": "DSEDLFNKFSNKKTNRKIPN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "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": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "PubMed", "id": "22218487", "url": "https://glygen.org/publication/PubMed/22218487" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser47" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q01448-1.40.40", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01448-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q01448-1.49.49", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.498.498", "start_pos": 498, "end_pos": 498, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "STLIKEKYHPKSKELAQLKD", "down_seq": "KRNLLMQLSDHSNGSLEKEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser498" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.49.49", "start_pos": 49, "end_pos": 49, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "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": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "DTNAEVLNTDNSIKKETGSD", "down_seq": "EDLFNKFSNKKTNRKIPNIA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser49" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q01448-1.40.40", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q01448-1.45.45", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q01448-1.47.47", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.552.552", "start_pos": 552, "end_pos": 552, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DMEEDEGEIDTETNTVTTTI", "down_seq": "PKKKSHPMKGKNLIGKYDVE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser552" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.590.590", "start_pos": 590, "end_pos": 590, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "DVEDPFIDDSELLWEEQRAA", "down_seq": "KDGFFVYFGPLIEKGHYASL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr590" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "Q01448-1.597.597", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.597.597", "start_pos": 597, "end_pos": 597, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "DDSELLWEEQRAATKDGFFV", "down_seq": "FGPLIEKGHYASLERANGTM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr597" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q01448-1.590.590", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q01448-1.83.83", "start_pos": 83, "end_pos": 83, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "RKIPNIAEELAKNRNYVKGA", "down_seq": "PSPIIISGSSSTSPSGPSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser83" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q01448-1.85.85", "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": "Q01448-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "Q01448-1", "length": 625, "uniprot_id": "HPC2_YEAST", "protein_name": "Histone promoter control protein 2", "refseq_ac": "NP_009774", "refseq_name": "Hpc2p", "gene_name": "HPC2", "gene_names_uniprotkb": "HPC2; YBR1503", "gene_names_refseq": "HPC2", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q01448", "url": "https://www.uniprot.org/uniprotkb/Q01448" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448", "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": "IPNIAEELAKNRNYVKGASP", "down_seq": "PIIISGSSSTSPSGPSSSST", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000000419", "url": "https://www.yeastgenome.org/locus/S000000419" }, { "database": "iPTMnet", "id": "Q01448", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q01448" }, { "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": "123", "end_pos": "123" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "128", "end_pos": "128" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "214", "end_pos": "214" }, { "start_pos": "223", "end_pos": "223" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "229", "end_pos": "229" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "238", "end_pos": "238" }, { "start_pos": "244", "end_pos": "244" }, { "start_pos": "265", "end_pos": "265" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "285", "end_pos": "285" }, { "start_pos": "305", "end_pos": "305" }, { "start_pos": "307", "end_pos": "307" }, { "start_pos": "312", "end_pos": "312" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "421", "end_pos": "421" }, { "start_pos": "424", "end_pos": "424" }, { "start_pos": "433", "end_pos": "433" }, { "start_pos": "435", "end_pos": "435" }, { "start_pos": "45", "end_pos": "45" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "498", "end_pos": "498" }, { "start_pos": "49", "end_pos": "49" }, { "start_pos": "552", "end_pos": "552" }, { "start_pos": "590", "end_pos": "590" }, { "start_pos": "597", "end_pos": "597" }, { "start_pos": "83", "end_pos": "83" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q01448-1.83.83", "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": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02199-1.261.261", "start_pos": 261, "end_pos": 261, "uniprot_canonical_ac": "Q02199-1", "length": 472, "uniprot_id": "NUP49_YEAST", "protein_name": "Nucleoporin NUP49/NSP49", "refseq_ac": "NP_011343", "refseq_name": "FG-nucleoporin NUP49", "gene_name": "NUP49", "gene_names_uniprotkb": "NUP49; G1648; NSP49", "gene_names_refseq": "NSP49; NUP49", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02199", "url": "https://www.uniprot.org/uniprotkb/Q02199" } ], "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": "QLQQQPQMQCALQNLSQLPI", "down_seq": "PMTRISELPPQIRQEIEQLD", "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": "Thr261", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "261", "end_pos": "261" } ] } ], "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": "Q02336-1.213.213", "start_pos": 213, "end_pos": 213, "uniprot_canonical_ac": "Q02336-1", "length": 434, "uniprot_id": "ADA2_YEAST", "protein_name": "SAGA complex subunit ADA2", "refseq_ac": "NP_010736", "refseq_name": "chromatin-binding transcription regulator ADA2", "gene_name": "ADA2", "gene_names_uniprotkb": "ADA2; D9461.33", "gene_names_refseq": "ADA2; SWI8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02336", "url": "https://www.uniprot.org/uniprotkb/Q02336" } ], "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": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336" } ], "reference": [ { "type": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ] } ], "crossref": [ { "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DQPLDIELKFAILDIYNSRL", "down_seq": "TRAEKKRLLFENHLMDYRKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" } ], "site_lbl": "Thr213" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "342", "end_pos": "342" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02336-1.321.321", "start_pos": 321, "end_pos": 321, "uniprot_canonical_ac": "Q02336-1", "length": 434, "uniprot_id": "ADA2_YEAST", "protein_name": "SAGA complex subunit ADA2", "refseq_ac": "NP_010736", "refseq_name": "chromatin-binding transcription regulator ADA2", "gene_name": "ADA2", "gene_names_uniprotkb": "ADA2; D9461.33", "gene_names_refseq": "ADA2; SWI8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02336", "url": "https://www.uniprot.org/uniprotkb/Q02336" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002856", "url": "https://www.yeastgenome.org/locus/S000002856", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ERDKQARISSFEKFGASTAA", "down_seq": "LSEGNSRYRSNSAHRSNAEY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002856", "url": "https://www.yeastgenome.org/locus/S000002856" }, { "database": "iPTMnet", "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser321" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "342", "end_pos": "342" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q02336-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02336-1.333.333", "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": "Q02336-1.323.323", "start_pos": 323, "end_pos": 323, "uniprot_canonical_ac": "Q02336-1", "length": 434, "uniprot_id": "ADA2_YEAST", "protein_name": "SAGA complex subunit ADA2", "refseq_ac": "NP_010736", "refseq_name": "chromatin-binding transcription regulator ADA2", "gene_name": "ADA2", "gene_names_uniprotkb": "ADA2; D9461.33", "gene_names_refseq": "ADA2; SWI8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02336", "url": "https://www.uniprot.org/uniprotkb/Q02336" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002856", "url": "https://www.yeastgenome.org/locus/S000002856", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DKQARISSFEKFGASTAASL", "down_seq": "EGNSRYRSNSAHRSNAEYSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002856", "url": "https://www.yeastgenome.org/locus/S000002856" }, { "database": "iPTMnet", "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser323" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "342", "end_pos": "342" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q02336-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02336-1.333.333", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02336-1.342.342", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02336-1.333.333", "start_pos": 333, "end_pos": 333, "uniprot_canonical_ac": "Q02336-1", "length": 434, "uniprot_id": "ADA2_YEAST", "protein_name": "SAGA complex subunit ADA2", "refseq_ac": "NP_010736", "refseq_name": "chromatin-binding transcription regulator ADA2", "gene_name": "ADA2", "gene_names_uniprotkb": "ADA2; D9461.33", "gene_names_refseq": "ADA2; SWI8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02336", "url": "https://www.uniprot.org/uniprotkb/Q02336" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002856", "url": "https://www.yeastgenome.org/locus/S000002856", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KFGASTAASLSEGNSRYRSN", "down_seq": "AHRSNAEYSQNYSENGGRKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002856", "url": "https://www.yeastgenome.org/locus/S000002856" }, { "database": "iPTMnet", "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser333" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "342", "end_pos": "342" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q02336-1.321.321", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q02336-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02336-1.342.342", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02336-1.342.342", "start_pos": 342, "end_pos": 342, "uniprot_canonical_ac": "Q02336-1", "length": 434, "uniprot_id": "ADA2_YEAST", "protein_name": "SAGA complex subunit ADA2", "refseq_ac": "NP_010736", "refseq_name": "chromatin-binding transcription regulator ADA2", "gene_name": "ADA2", "gene_names_uniprotkb": "ADA2; D9461.33", "gene_names_refseq": "ADA2; SWI8", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02336", "url": "https://www.uniprot.org/uniprotkb/Q02336" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002856", "url": "https://www.yeastgenome.org/locus/S000002856", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSEGNSRYRSNSAHRSNAEY", "down_seq": "QNYSENGGRKKNMTISDIQH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002856", "url": "https://www.yeastgenome.org/locus/S000002856" }, { "database": "iPTMnet", "id": "Q02336", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02336" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser342" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "213", "end_pos": "213" }, { "start_pos": "321", "end_pos": "321" }, { "start_pos": "323", "end_pos": "323" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "342", "end_pos": "342" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q02336-1.323.323", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02336-1.333.333", "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": "Q02455-1.139.139", "start_pos": 139, "end_pos": 139, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "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": "Q02455", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02455" }, { "database": "O-GlcNAc Atlas", "id": "Q02455", "url": "https://oglcnac.org/atlas/detail/Q02455" } ], "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": "Q02455", "url": "https://oglcnac.org/atlas/detail/Q02455", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ELEFVKRKLDDLTEEKKETQ", "down_seq": "NQQRTLKILDERLKEIELVR", "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": "Ser139", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q02455", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q02455" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "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": "Q02455", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02455" }, { "database": "O-GlcNAc Atlas", "id": "Q02455", "url": "https://oglcnac.org/atlas/detail/Q02455" } ], "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": "Q02455", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02455", "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": "Q02455", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q02455" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q02455-1.2.2", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q02455-1.6.6", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1043.1043", "start_pos": 1043, "end_pos": 1043, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SKIQNDLDQQTIYANTAQNN", "down_seq": "EQELQKHADVSKTISELREQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" } ], "site_lbl": "Tyr1043" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1192.1192", "start_pos": 1192, "end_pos": 1192, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RQKISLMDVELQDARTKLDN", "down_seq": "RVEKENHSSIIQQHDDIMEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1192" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1297.1297", "start_pos": 1297, "end_pos": 1297, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "EEVHRWKKRSQDILEKHEQL", "down_seq": "SSDYEKLESEIENLKEELEN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1297" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q02455-1.1298.1298", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02455-1.1299.1299", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1298.1298", "start_pos": 1298, "end_pos": 1298, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "EVHRWKKRSQDILEKHEQLS", "down_seq": "SDYEKLESEIENLKEELENK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1298" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q02455-1.1297.1297", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q02455-1.1299.1299", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1299.1299", "start_pos": 1299, "end_pos": 1299, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "VHRWKKRSQDILEKHEQLSS", "down_seq": "DYEKLESEIENLKEELENKE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1299" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q02455-1.1297.1297", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q02455-1.1298.1298", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1467.1467", "start_pos": 1467, "end_pos": 1467, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "QATSANEQNDLSNIVESMKK", "down_seq": "FEEDKIKFIKEKTQEVNEKI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1467" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1511.1511", "start_pos": 1511, "end_pos": 1511, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "QERLNQPSNINMEEIKKKWE", "down_seq": "EHEQEVSQKIREAEEALKKR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1511" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1609.1609", "start_pos": 1609, "end_pos": 1609, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "KELENEYNKKLQEELKDVPH", "down_seq": "SHISDDERDKLRAEIESRLR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1609" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q02455-1.1610.1610", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02455-1.1613.1613", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1610.1610", "start_pos": 1610, "end_pos": 1610, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ELENEYNKKLQEELKDVPHS", "down_seq": "HISDDERDKLRAEIESRLRE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1610" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q02455-1.1609.1609", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02455-1.1613.1613", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1613.1613", "start_pos": 1613, "end_pos": 1613, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "NEYNKKLQEELKDVPHSSHI", "down_seq": "DDERDKLRAEIESRLREEFN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1613" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q02455-1.1609.1609", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02455-1.1610.1610", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1643.1643", "start_pos": 1643, "end_pos": 1643, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EIESRLREEFNNELQAIKKK", "down_seq": "FDEGKQQAMMKTTLLERKLA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1643" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1667.1667", "start_pos": 1667, "end_pos": 1667, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GKQQAMMKTTLLERKLAKME", "down_seq": "QLSETKQSAESPPKSVNNVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1667" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q02455-1.1670.1670", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02455-1.1672.1672", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02455-1.1675.1675", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02455-1.1678.1678", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1670.1670", "start_pos": 1670, "end_pos": 1670, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "A proteome-wide analysis of kinase-substrate network in the DNA damage response.", "journal": "The Journal of biological chemistry", "date": "2010-04-23", "authors": "Chen Sheng-hong, Albuquerque Claudio P, Liang Jason, Suhandynata Raymond T, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "QAMMKTTLLERKLAKMESQL", "down_seq": "ETKQSAESPPKSVNNVQNPL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1670" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q02455-1.1667.1667", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02455-1.1672.1672", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02455-1.1675.1675", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02455-1.1678.1678", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1672.1672", "start_pos": 1672, "end_pos": 1672, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "MMKTTLLERKLAKMESQLSE", "down_seq": "KQSAESPPKSVNNVQNPLLG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1672" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q02455-1.1667.1667", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02455-1.1670.1670", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02455-1.1675.1675", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q02455-1.1678.1678", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1675.1675", "start_pos": 1675, "end_pos": 1675, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "TTLLERKLAKMESQLSETKQ", "down_seq": "AESPPKSVNNVQNPLLGLPR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1675" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q02455-1.1667.1667", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q02455-1.1670.1670", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02455-1.1672.1672", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02455-1.1678.1678", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1678.1678", "start_pos": 1678, "end_pos": 1678, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "LERKLAKMESQLSETKQSAE", "down_seq": "PPKSVNNVQNPLLGLPRKIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "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": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "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": "Ser1678" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q02455-1.1667.1667", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02455-1.1670.1670", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q02455-1.1672.1672", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02455-1.1675.1675", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q02455-1.167.167", "start_pos": 167, "end_pos": 167, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ILDERLKEIELVRVENNRSN", "down_seq": "ECKKLRSTIMDLETKQQGYI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser167" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1703.1703", "start_pos": 1703, "end_pos": 1703, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "VNNVQNPLLGLPRKIEENSN", "down_seq": "PFNPLLSGEKLLKLNSKSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1703" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "upstream", "id": "Q02455-1.1710.1710", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q02455-1.1721.1721", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02455-1.1722.1722", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q02455-1.1723.1723", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1710.1710", "start_pos": 1710, "end_pos": 1710, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455", "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "LLGLPRKIEENSNSPFNPLL", "down_seq": "GEKLLKLNSKSSSGGFNPFT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "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": "Ser1710" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q02455-1.1703.1703", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02455-1.1721.1721", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02455-1.1722.1722", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q02455-1.1723.1723", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q02455-1.1730.1730", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q02455-1.1721.1721", "start_pos": 1721, "end_pos": 1721, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "SNSPFNPLLSGEKLLKLNSK", "down_seq": "SSGGFNPFTSPSPNKHLQND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser1721" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q02455-1.1703.1703", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q02455-1.1710.1710", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q02455-1.1722.1722", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02455-1.1723.1723", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02455-1.1730.1730", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02455-1.1731.1731", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02455-1.1733.1733", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1722.1722", "start_pos": 1722, "end_pos": 1722, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSPFNPLLSGEKLLKLNSKS", "down_seq": "SGGFNPFTSPSPNKHLQNDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1722" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q02455-1.1703.1703", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02455-1.1710.1710", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q02455-1.1721.1721", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q02455-1.1723.1723", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02455-1.1730.1730", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02455-1.1731.1731", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02455-1.1733.1733", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1723.1723", "start_pos": 1723, "end_pos": 1723, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "A proteome-wide analysis of kinase-substrate network in the DNA damage response.", "journal": "The Journal of biological chemistry", "date": "2010-04-23", "authors": "Chen Sheng-hong, Albuquerque Claudio P, Liang Jason, Suhandynata Raymond T, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "SPFNPLLSGEKLLKLNSKSS", "down_seq": "GGFNPFTSPSPNKHLQNDND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1723" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02455-1.1703.1703", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q02455-1.1710.1710", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02455-1.1721.1721", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q02455-1.1722.1722", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02455-1.1730.1730", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02455-1.1731.1731", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02455-1.1733.1733", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1730.1730", "start_pos": 1730, "end_pos": 1730, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "SGEKLLKLNSKSSSGGFNPF", "down_seq": "SPSPNKHLQNDNDKRESLAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1730" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02455-1.1710.1710", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02455-1.1721.1721", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02455-1.1722.1722", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02455-1.1723.1723", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q02455-1.1731.1731", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02455-1.1733.1733", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1731.1731", "start_pos": 1731, "end_pos": 1731, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "GEKLLKLNSKSSSGGFNPFT", "down_seq": "PSPNKHLQNDNDKRESLANK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "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": "Ser1731" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q02455-1.1721.1721", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02455-1.1722.1722", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02455-1.1723.1723", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q02455-1.1730.1730", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02455-1.1733.1733", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q02455-1.1733.1733", "start_pos": 1733, "end_pos": 1733, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "KLLKLNSKSSSGGFNPFTSP", "down_seq": "PNKHLQNDNDKRESLANKTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "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": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "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": "Ser1733" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q02455-1.1721.1721", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q02455-1.1722.1722", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q02455-1.1723.1723", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02455-1.1730.1730", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02455-1.1731.1731", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q02455-1.1772.1772", "start_pos": 1772, "end_pos": 1772, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "TDPPTHLEPSFNIPASRGLI", "down_seq": "SSSTLSTDTNDEELTSNNPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1772" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q02455-1.1773.1773", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02455-1.1779.1779", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1773.1773", "start_pos": 1773, "end_pos": 1773, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DPPTHLEPSFNIPASRGLIS", "down_seq": "SSTLSTDTNDEELTSNNPAQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1773" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q02455-1.1772.1772", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q02455-1.1779.1779", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1779.1779", "start_pos": 1779, "end_pos": 1779, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "EPSFNIPASRGLISSSSTLS", "down_seq": "DTNDEELTSNNPAQKDSSNR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" } ], "site_lbl": "Thr1779" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q02455-1.1772.1772", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q02455-1.1773.1773", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1803.1803", "start_pos": 1803, "end_pos": 1803, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "DEELTSNNPAQKDSSNRNVQ", "down_seq": "EEDTEKKKEGEPVKRGEAIE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "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": "Ser1803" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q02455-1.1826.1826", "start_pos": 1826, "end_pos": 1826, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DTEKKKEGEPVKRGEAIEEQ", "down_seq": "KSNKRPIDEVGELKNDEDDT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Thr1826" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "upstream", "id": "Q02455-1.1846.1846", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1846.1846", "start_pos": 1846, "end_pos": 1846, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "TKSNKRPIDEVGELKNDEDD", "down_seq": "TENINESKKIKTEDEEEKET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1846" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02455-1.1826.1826", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q02455-1.1847.1847", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1847.1847", "start_pos": 1847, "end_pos": 1847, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "KSNKRPIDEVGELKNDEDDT", "down_seq": "ENINESKKIKTEDEEEKETD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr1847" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q02455-1.1846.1846", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.1874.1874", "start_pos": 1874, "end_pos": 1874, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKIKTEDEEEKETDKVNDEN", "down_seq": "", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1874" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.284.284", "start_pos": 284, "end_pos": 284, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNELSKSLQEKLLEIKGLSD", "down_seq": "LNSEKQEFSAEMSLKQRLVD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser284" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "DHDTPMESIQNGENSDERLN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "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": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q02455-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02455-1.6.6", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.333.333", "start_pos": 333, "end_pos": 333, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "VKEELNSIRELNTAKVIADD", "down_seq": "KKQTPENEDLLKELQLTKEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser333" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "Q02455-1.337.337", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.337.337", "start_pos": 337, "end_pos": 337, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455", "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "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": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "LNSIRELNTAKVIADDSKKQ", "down_seq": "PENEDLLKELQLTKEKLAQC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "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": "Thr337" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q02455-1.333.333", "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": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.365.365", "start_pos": 365, "end_pos": 365, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "KELQLTKEKLAQCEKECLRL", "down_seq": "SITDEADEDNENLSAKSSSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser365" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q02455-1.366.366", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02455-1.368.368", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q02455-1.379.379", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02455-1.384.384", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.366.366", "start_pos": 366, "end_pos": 366, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "ELQLTKEKLAQCEKECLRLS", "down_seq": "ITDEADEDNENLSAKSSSDF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser366" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q02455-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02455-1.368.368", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q02455-1.379.379", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q02455-1.384.384", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.368.368", "start_pos": 368, "end_pos": 368, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "QLTKEKLAQCEKECLRLSSI", "down_seq": "DEADEDNENLSAKSSSDFIF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr368" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q02455-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02455-1.366.366", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02455-1.379.379", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q02455-1.384.384", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.379.379", "start_pos": 379, "end_pos": 379, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "KECLRLSSITDEADEDNENL", "down_seq": "AKSSSDFIFLKKQLIKERRT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "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": "Ser379" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q02455-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q02455-1.366.366", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q02455-1.368.368", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02455-1.384.384", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDERLNAIASFFGCSLEQVK", "down_seq": "FDGDVVKHLNDKLLQFNELK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser37" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.384.384", "start_pos": 384, "end_pos": 384, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSSITDEADEDNENLSAKSS", "down_seq": "DFIFLKKQLIKERRTKEHLQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser384" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q02455-1.365.365", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q02455-1.366.366", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q02455-1.368.368", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q02455-1.379.379", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.492.492", "start_pos": 492, "end_pos": 492, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TLTKQRLDLCRQIQYLLITN", "down_seq": "VSNDSKGPLRKEEIQFIQNI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser492" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.576.576", "start_pos": 576, "end_pos": 576, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LADKLESKEKKSKQSLQKIE", "down_seq": "ETVNEAKEAIITLKSEKMDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser576" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.620.620", "start_pos": 620, "end_pos": 620, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IEELQKELEELKTSVPNEDA", "down_seq": "YSNVTIKQLTETKRDLESQV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser620" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q02455-1.621.621", "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": "Q02455-1.621.621", "start_pos": 621, "end_pos": 621, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "EELQKELEELKTSVPNEDAS", "down_seq": "SNVTIKQLTETKRDLESQVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Tyr621" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q02455-1.620.620", "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": "Q02455-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LNDKLLQFNELKSENLKVTV", "down_seq": "FDELKASSLKKIDGLKTEME", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser66" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.671.671", "start_pos": 671, "end_pos": 671, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TRESTENMSLLNKEIQDLYD", "down_seq": "KSDISIKLGKEKSSRILAEE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser671" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "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": "MSDHD", "down_seq": "PMESIQNGENSDERLNAIAS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr6" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q02455-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02455-1.2.2", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.716.716", "start_pos": 716, "end_pos": 716, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "LSNTLDLTKAENDQLRKRFD", "down_seq": "LQNTILKQDSKTHETLNEYV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr716" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.774.774", "start_pos": 774, "end_pos": 774, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "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": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "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": "EEQKLRVHLEKNLKQELNKL", "down_seq": "PEKDSLRIMVTQLQTLQKER", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser774" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.817.817", "start_pos": 817, "end_pos": 817, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LLEETRKSCQKKIDELEDAL", "down_seq": "ELKKETSQKDHHIKQLEEDN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser817" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02455-1.921.921", "start_pos": 921, "end_pos": 921, "uniprot_canonical_ac": "Q02455-1", "length": 1875, "uniprot_id": "MLP1_YEAST", "protein_name": "Protein MLP1", "refseq_ac": "NP_013021", "refseq_name": "Mlp1p", "gene_name": "MLP1", "gene_names_uniprotkb": "MLP1; YKR415", "gene_names_refseq": "MLP1; MPL1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02455", "url": "https://www.uniprot.org/uniprotkb/Q02455" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NDDSLRKELEKSKINLTDAY", "down_seq": "QIKEYKDLYETTSQSLQQTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000001803", "url": "https://www.yeastgenome.org/locus/S000001803" }, { "database": "iPTMnet", "id": "Q02455", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02455" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser921" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "139", "end_pos": "139" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1043", "end_pos": "1043" }, { "start_pos": "1192", "end_pos": "1192" }, { "start_pos": "1297", "end_pos": "1297" }, { "start_pos": "1298", "end_pos": "1298" }, { "start_pos": "1299", "end_pos": "1299" }, { "start_pos": "1467", "end_pos": "1467" }, { "start_pos": "1511", "end_pos": "1511" }, { "start_pos": "1609", "end_pos": "1609" }, { "start_pos": "1610", "end_pos": "1610" }, { "start_pos": "1613", "end_pos": "1613" }, { "start_pos": "1643", "end_pos": "1643" }, { "start_pos": "1667", "end_pos": "1667" }, { "start_pos": "1670", "end_pos": "1670" }, { "start_pos": "1672", "end_pos": "1672" }, { "start_pos": "1675", "end_pos": "1675" }, { "start_pos": "1678", "end_pos": "1678" }, { "start_pos": "167", "end_pos": "167" }, { "start_pos": "1703", "end_pos": "1703" }, { "start_pos": "1710", "end_pos": "1710" }, { "start_pos": "1721", "end_pos": "1721" }, { "start_pos": "1722", "end_pos": "1722" }, { "start_pos": "1723", "end_pos": "1723" }, { "start_pos": "1730", "end_pos": "1730" }, { "start_pos": "1731", "end_pos": "1731" }, { "start_pos": "1733", "end_pos": "1733" }, { "start_pos": "1772", "end_pos": "1772" }, { "start_pos": "1773", "end_pos": "1773" }, { "start_pos": "1779", "end_pos": "1779" }, { "start_pos": "1803", "end_pos": "1803" }, { "start_pos": "1826", "end_pos": "1826" }, { "start_pos": "1846", "end_pos": "1846" }, { "start_pos": "1847", "end_pos": "1847" }, { "start_pos": "1874", "end_pos": "1874" }, { "start_pos": "284", "end_pos": "284" }, { "start_pos": "2", "end_pos": "2" }, { "start_pos": "333", "end_pos": "333" }, { "start_pos": "337", "end_pos": "337" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "368", "end_pos": "368" }, { "start_pos": "379", "end_pos": "379" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "384", "end_pos": "384" }, { "start_pos": "492", "end_pos": "492" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "620", "end_pos": "620" }, { "start_pos": "621", "end_pos": "621" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "671", "end_pos": "671" }, { "start_pos": "6", "end_pos": "6" }, { "start_pos": "716", "end_pos": "716" }, { "start_pos": "774", "end_pos": "774" }, { "start_pos": "817", "end_pos": "817" }, { "start_pos": "921", "end_pos": "921" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02785-1.1405.1405", "start_pos": 1405, "end_pos": 1405, "uniprot_canonical_ac": "Q02785-1", "length": 1511, "uniprot_id": "PDR12_YEAST", "protein_name": "ATP-dependent permease PDR12", "refseq_ac": "NP_015267", "refseq_name": "ATP-binding cassette multidrug transporter PDR12", "gene_name": "PDR12", "gene_names_uniprotkb": "PDR12; LPE14C", "gene_names_refseq": "PDR12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "N", "start_aa": "N", "up_seq": "NIMDPPSGKTCGEFLSTYMD", "down_seq": "NTGYLVNPTATENCQYCPYT", "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": "Asn1405", "evidence": [ { "id": "Q02785", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprotkb/Q02785#ptm_processing" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1405", "end_pos": "1405" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "28", "end_pos": "28" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "93", "end_pos": "93" } ] } ], "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": "Q02785-1.28.28", "start_pos": 28, "end_pos": 28, "uniprot_canonical_ac": "Q02785-1", "length": 1511, "uniprot_id": "PDR12_YEAST", "protein_name": "ATP-dependent permease PDR12", "refseq_ac": "NP_015267", "refseq_name": "ATP-binding cassette multidrug transporter PDR12", "gene_name": "PDR12", "gene_names_uniprotkb": "PDR12; LPE14C", "gene_names_refseq": "PDR12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IEKDISSRSNHDDDYANSVQ", "down_seq": "YAASEGQVDNEDLAATSQLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser28" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1405", "end_pos": "1405" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "28", "end_pos": "28" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "Q02785-1.32.32", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02785-1.32.32", "start_pos": 32, "end_pos": 32, "uniprot_canonical_ac": "Q02785-1", "length": 1511, "uniprot_id": "PDR12_YEAST", "protein_name": "ATP-dependent permease PDR12", "refseq_ac": "NP_015267", "refseq_name": "ATP-binding cassette multidrug transporter PDR12", "gene_name": "PDR12", "gene_names_uniprotkb": "PDR12; LPE14C", "gene_names_refseq": "PDR12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979", "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": "ISSRSNHDDDYANSVQSYAA", "down_seq": "EGQVDNEDLAATSQLSRHLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser32" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1405", "end_pos": "1405" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "28", "end_pos": "28" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q02785-1.28.28", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q02785-1.52.52", "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": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02785-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "Q02785-1", "length": 1511, "uniprot_id": "PDR12_YEAST", "protein_name": "ATP-dependent permease PDR12", "refseq_ac": "NP_015267", "refseq_name": "ATP-binding cassette multidrug transporter PDR12", "gene_name": "PDR12", "gene_names_uniprotkb": "PDR12; LPE14C", "gene_names_refseq": "PDR12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785", "database": "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": "TDEHIEKDISSRSNHDDDYA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1405", "end_pos": "1405" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "28", "end_pos": "28" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q02785-1.4.4", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02785-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "Q02785-1", "length": 1511, "uniprot_id": "PDR12_YEAST", "protein_name": "ATP-dependent permease PDR12", "refseq_ac": "NP_015267", "refseq_name": "ATP-binding cassette multidrug transporter PDR12", "gene_name": "PDR12", "gene_names_uniprotkb": "PDR12; LPE14C", "gene_names_refseq": "PDR12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785", "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": "MSS", "down_seq": "DEHIEKDISSRSNHDDDYAN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr4" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1405", "end_pos": "1405" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "28", "end_pos": "28" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q02785-1.3.3", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02785-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "Q02785-1", "length": 1511, "uniprot_id": "PDR12_YEAST", "protein_name": "ATP-dependent permease PDR12", "refseq_ac": "NP_015267", "refseq_name": "ATP-binding cassette multidrug transporter PDR12", "gene_name": "PDR12", "gene_names_uniprotkb": "PDR12; LPE14C", "gene_names_refseq": "PDR12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979", "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": "SEGQVDNEDLAATSQLSRHL", "down_seq": "NILSNEEGIERLESMARVIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "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": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979" }, { "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": "Ser52" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1405", "end_pos": "1405" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "28", "end_pos": "28" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02785-1.32.32", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02785-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q02785-1.66.66", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02785-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "Q02785-1", "length": 1511, "uniprot_id": "PDR12_YEAST", "protein_name": "ATP-dependent permease PDR12", "refseq_ac": "NP_015267", "refseq_name": "ATP-binding cassette multidrug transporter PDR12", "gene_name": "PDR12", "gene_names_uniprotkb": "PDR12; LPE14C", "gene_names_refseq": "PDR12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785", "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": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979", "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": "VDNEDLAATSQLSRHLSNIL", "down_seq": "NEEGIERLESMARVISHKTK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979" }, { "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": "Ser56" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1405", "end_pos": "1405" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "28", "end_pos": "28" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q02785-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02785-1.66.66", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 11 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02785-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "Q02785-1", "length": 1511, "uniprot_id": "PDR12_YEAST", "protein_name": "ATP-dependent permease PDR12", "refseq_ac": "NP_015267", "refseq_name": "ATP-binding cassette multidrug transporter PDR12", "gene_name": "PDR12", "gene_names_uniprotkb": "PDR12; LPE14C", "gene_names_refseq": "PDR12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "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": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785", "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": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979", "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": "QLSRHLSNILSNEEGIERLE", "down_seq": "MARVISHKTKKEMDSFEIND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" }, { "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": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser66" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1405", "end_pos": "1405" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "28", "end_pos": "28" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q02785-1.52.52", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q02785-1.56.56", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q02785-1.81.81", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02785-1.81.81", "start_pos": 81, "end_pos": 81, "uniprot_canonical_ac": "Q02785-1", "length": 1511, "uniprot_id": "PDR12_YEAST", "protein_name": "ATP-dependent permease PDR12", "refseq_ac": "NP_015267", "refseq_name": "ATP-binding cassette multidrug transporter PDR12", "gene_name": "PDR12", "gene_names_uniprotkb": "PDR12; LPE14C", "gene_names_refseq": "PDR12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IERLESMARVISHKTKKEMD", "down_seq": "FEINDLDFDLRSLLHYLRSR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979" } ], "site_lbl": "Ser81" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1405", "end_pos": "1405" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "28", "end_pos": "28" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q02785-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02785-1.93.93", "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": "Q02785-1.93.93", "start_pos": 93, "end_pos": 93, "uniprot_canonical_ac": "Q02785-1", "length": 1511, "uniprot_id": "PDR12_YEAST", "protein_name": "ATP-dependent permease PDR12", "refseq_ac": "NP_015267", "refseq_name": "ATP-binding cassette multidrug transporter PDR12", "gene_name": "PDR12", "gene_names_uniprotkb": "PDR12; LPE14C", "gene_names_refseq": "PDR12", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02785", "url": "https://www.uniprot.org/uniprotkb/Q02785" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HKTKKEMDSFEINDLDFDLR", "down_seq": "LLHYLRSRQLEQGIEPGDSG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000005979", "url": "https://www.yeastgenome.org/locus/S000005979" }, { "database": "iPTMnet", "id": "Q02785", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02785" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser93" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "1405", "end_pos": "1405" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "28", "end_pos": "28" }, { "start_pos": "32", "end_pos": "32" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "56", "end_pos": "56" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "81", "end_pos": "81" }, { "start_pos": "93", "end_pos": "93" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q02785-1.81.81", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.123.123", "start_pos": 123, "end_pos": 123, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "IYTDYLVKELLRYFKQDFFK", "down_seq": "CNKPDCNHCGQNTSENMTPL", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "upstream", "id": "Q02890-1.129.129", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.132.132", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.129.129", "start_pos": 129, "end_pos": 129, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "VKELLRYFKQDFFKWCNKPD", "down_seq": "NHCGQNTSENMTPLGSQGPN", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] }, { "sequence_org": "C", "sequence_mut": "S", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q02890-1.123.123", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02890-1.132.132", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.132.132", "start_pos": 132, "end_pos": 132, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "LLRYFKQDFFKWCNKPDCNH", "down_seq": "GQNTSENMTPLGSQGPNGEE", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] }, { "sequence_org": "C", "sequence_mut": "S", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q02890-1.123.123", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02890-1.129.129", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.165.165", "start_pos": 165, "end_pos": 165, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "SQGPNGEESKFNCGTVEIYK", "down_seq": "NRCGNITRFPRYNDPIKLLE", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] }, { "sequence_org": "C", "sequence_mut": "S", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q02890-1.168.168", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.174.174", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.177.177", "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": "Q02890-1.168.168", "start_pos": 168, "end_pos": 168, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "PNGEESKFNCGTVEIYKCNR", "down_seq": "GNITRFPRYNDPIKLLETRK", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] }, { "sequence_org": "C", "sequence_mut": "S", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q02890-1.165.165", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q02890-1.174.174", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.177.177", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02890-1.187.187", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.174.174", "start_pos": 174, "end_pos": 174, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "KFNCGTVEIYKCNRCGNITR", "down_seq": "PRYNDPIKLLETRKGRCGEW", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q02890-1.165.165", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q02890-1.168.168", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02890-1.177.177", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q02890-1.187.187", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q02890-1.189.189", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q02890-1.191.191", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q02890-1.194.194", "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": "Q02890-1.177.177", "start_pos": 177, "end_pos": 177, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "CGTVEIYKCNRCGNITRFPR", "down_seq": "NDPIKLLETRKGRCGEWCNL", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q02890-1.165.165", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02890-1.168.168", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02890-1.174.174", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02890-1.187.187", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.189.189", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q02890-1.191.191", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q02890-1.194.194", "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": "Q02890-1.187.187", "start_pos": 187, "end_pos": 187, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "RCGNITRFPRYNDPIKLLET", "down_seq": "KGRCGEWCNLFTLILKSFGL", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q02890-1.168.168", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q02890-1.174.174", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q02890-1.177.177", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.189.189", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.191.191", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02890-1.198.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.199.199", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02890-1.206.206", "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": "Q02890-1.189.189", "start_pos": 189, "end_pos": 189, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "GNITRFPRYNDPIKLLETRK", "down_seq": "RCGEWCNLFTLILKSFGLDV", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q02890-1.174.174", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.177.177", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.187.187", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.191.191", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02890-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.198.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02890-1.199.199", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q02890-1.206.206", "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": "Q02890-1.191.191", "start_pos": 191, "end_pos": 191, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "ITRFPRYNDPIKLLETRKGR", "down_seq": "GEWCNLFTLILKSFGLDVRY", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q02890-1.174.174", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q02890-1.177.177", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.187.187", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.189.189", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02890-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.198.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02890-1.199.199", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02890-1.210.210", "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": "Q02890-1.194.194", "start_pos": 194, "end_pos": 194, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "FPRYNDPIKLLETRKGRCGE", "down_seq": "CNLFTLILKSFGLDVRYVWN", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02890-1.174.174", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q02890-1.177.177", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02890-1.187.187", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q02890-1.189.189", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02890-1.191.191", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.198.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02890-1.199.199", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q02890-1.212.212", "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": "Q02890-1.198.198", "start_pos": 198, "end_pos": 198, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "NDPIKLLETRKGRCGEWCNL", "down_seq": "TLILKSFGLDVRYVWNREDH", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q02890-1.187.187", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02890-1.189.189", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02890-1.191.191", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q02890-1.199.199", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q02890-1.218.218", "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": "Q02890-1.199.199", "start_pos": 199, "end_pos": 199, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DPIKLLETRKGRCGEWCNLF", "down_seq": "LILKSFGLDVRYVWNREDHV", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q02890-1.187.187", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q02890-1.189.189", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02890-1.191.191", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q02890-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q02890-1.198.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02890-1.218.218", "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": "Q02890-1.203.203", "start_pos": 203, "end_pos": 203, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "LLETRKGRCGEWCNLFTLIL", "down_seq": "SFGLDVRYVWNREDHVWCEY", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q02890-1.187.187", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q02890-1.189.189", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.191.191", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02890-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q02890-1.198.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.199.199", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02890-1.222.222", "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": "Q02890-1.206.206", "start_pos": 206, "end_pos": 206, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "G", "start_aa": "G", "up_seq": "TRKGRCGEWCNLFTLILKSF", "down_seq": "LDVRYVWNREDHVWCEYFSN", "mutagenesis": [ { "sequence_org": "G", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q02890-1.187.187", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q02890-1.189.189", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q02890-1.191.191", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02890-1.198.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02890-1.199.199", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.210.210", "start_pos": 210, "end_pos": 210, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "RCGEWCNLFTLILKSFGLDV", "down_seq": "YVWNREDHVWCEYFSNFLNR", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q02890-1.191.191", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q02890-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.198.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q02890-1.199.199", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q02890-1.230.230", "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": "Q02890-1.212.212", "start_pos": 212, "end_pos": 212, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "GEWCNLFTLILKSFGLDVRY", "down_seq": "WNREDHVWCEYFSNFLNRWV", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q02890-1.194.194", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q02890-1.198.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q02890-1.199.199", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q02890-1.230.230", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02890-1.231.231", "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": "Q02890-1.218.218", "start_pos": 218, "end_pos": 218, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "PNG1, a yeast gene encoding a highly conserved peptide:N-glycanase.", "journal": "The Journal of cell biology", "date": "2000", "authors": "Suzuki T, Park H, Hollingsworth NM, Sternglanz R, Lennarz WJ", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "10831608", "url": "https://glygen.org/publication/PubMed/10831608" } ] }, { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "10831608", "url": "https://glygen.org/publication/PubMed/10831608", "database": "PubMed", "categories": [ "Other" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "FTLILKSFGLDVRYVWNRED", "down_seq": "VWCEYFSNFLNRWVHVDSCE", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "10831608", "url": "https://glygen.org/publication/PubMed/10831608" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] }, { "sequence_org": "H", "sequence_mut": "Y", "comment": "In png1-1; abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "10831608", "url": "https://glygen.org/publication/PubMed/10831608" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02890-1.198.198", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "downstream", "id": "Q02890-1.199.199", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.230.230", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q02890-1.231.231", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q02890-1.234.234", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q02890-1.235.235", "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": "Q02890-1.220.220", "start_pos": 220, "end_pos": 220, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "LILKSFGLDVRYVWNREDHV", "down_seq": "CEYFSNFLNRWVHVDSCEQS", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] }, { "sequence_org": "W", "sequence_mut": "F", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02890-1.230.230", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02890-1.231.231", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q02890-1.234.234", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q02890-1.235.235", "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": "Q02890-1.222.222", "start_pos": 222, "end_pos": 222, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "E", "start_aa": "E", "up_seq": "LKSFGLDVRYVWNREDHVWC", "down_seq": "YFSNFLNRWVHVDSCEQSFD", "mutagenesis": [ { "sequence_org": "E", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q02890-1.203.203", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02890-1.230.230", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.231.231", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.234.234", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q02890-1.235.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q02890-1.242.242", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.224.224", "start_pos": 224, "end_pos": 224, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "SFGLDVRYVWNREDHVWCEY", "down_seq": "SNFLNRWVHVDSCEQSFDQP", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q02890-1.206.206", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q02890-1.230.230", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.231.231", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02890-1.234.234", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02890-1.235.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q02890-1.242.242", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.230.230", "start_pos": 230, "end_pos": 230, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "RYVWNREDHVWCEYFSNFLN", "down_seq": "WVHVDSCEQSFDQPYIYSIN", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02890-1.210.210", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q02890-1.231.231", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.234.234", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02890-1.235.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.242.242", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.231.231", "start_pos": 231, "end_pos": 231, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "YVWNREDHVWCEYFSNFLNR", "down_seq": "VHVDSCEQSFDQPYIYSINW", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ] }, { "sequence_org": "W", "sequence_mut": "F", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q02890-1.212.212", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q02890-1.230.230", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02890-1.234.234", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.235.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02890-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q02890-1.251.251", "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": "Q02890-1.234.234", "start_pos": 234, "end_pos": 234, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "NREDHVWCEYFSNFLNRWVH", "down_seq": "DSCEQSFDQPYIYSINWNKK", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.230.230", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02890-1.231.231", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q02890-1.235.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02890-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q02890-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02890-1.253.253", "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": "Q02890-1.235.235", "start_pos": 235, "end_pos": 235, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "REDHVWCEYFSNFLNRWVHV", "down_seq": "SCEQSFDQPYIYSINWNKKM", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q02890-1.218.218", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q02890-1.220.220", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q02890-1.230.230", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.231.231", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q02890-1.234.234", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q02890-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q02890-1.253.253", "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": "Q02890-1.242.242", "start_pos": 242, "end_pos": 242, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "EYFSNFLNRWVHVDSCEQSF", "down_seq": "QPYIYSINWNKKMSYCIAFG", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02890-1.222.222", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q02890-1.224.224", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.230.230", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q02890-1.231.231", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02890-1.234.234", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02890-1.235.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02890-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q02890-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q02890-1.261.261", "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": "Q02890-1.251.251", "start_pos": 251, "end_pos": 251, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "WVHVDSCEQSFDQPYIYSIN", "down_seq": "NKKMSYCIAFGKDGVVDVSK", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02890-1.231.231", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q02890-1.234.234", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q02890-1.235.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02890-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q02890-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q02890-1.261.261", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q02890-1.264.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q02890-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q02890-1.268.268", "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": "Q02890-1.253.253", "start_pos": 253, "end_pos": 253, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "HVDSCEQSFDQPYIYSINWN", "down_seq": "KMSYCIAFGKDGVVDVSKRY", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q02890-1.234.234", "categories": [ "mutagenesis_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q02890-1.235.235", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q02890-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02890-1.261.261", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02890-1.264.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q02890-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q02890-1.268.268", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q02890-1.273.273", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.257.257", "start_pos": 257, "end_pos": 257, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "CEQSFDQPYIYSINWNKKMS", "down_seq": "CIAFGKDGVVDVSKRYILQN", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q02890-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q02890-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.261.261", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.264.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02890-1.268.268", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q02890-1.273.273", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.261.261", "start_pos": 261, "end_pos": 261, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "FDQPYIYSINWNKKMSYCIA", "down_seq": "GKDGVVDVSKRYILQNELPR", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q02890-1.242.242", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q02890-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02890-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02890-1.264.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02890-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.268.268", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q02890-1.273.273", "categories": [ "mutagenesis_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q02890-1.281.281", "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": "Q02890-1.264.264", "start_pos": 264, "end_pos": 264, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "PYIYSINWNKKMSYCIAFGK", "down_seq": "GVVDVSKRYILQNELPRDQI", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q02890-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q02890-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02890-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02890-1.261.261", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.268.268", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.273.273", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q02890-1.281.281", "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": "Q02890-1.266.266", "start_pos": 266, "end_pos": 266, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "IYSINWNKKMSYCIAFGKDG", "down_seq": "VDVSKRYILQNELPRDQIKE", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q02890-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q02890-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02890-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q02890-1.261.261", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.264.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.268.268", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.273.273", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q02890-1.281.281", "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": "Q02890-1.268.268", "start_pos": 268, "end_pos": 268, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "D", "start_aa": "D", "up_seq": "SINWNKKMSYCIAFGKDGVV", "down_seq": "VSKRYILQNELPRDQIKEED", "mutagenesis": [ { "sequence_org": "D", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q02890-1.251.251", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q02890-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q02890-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02890-1.261.261", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.264.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02890-1.273.273", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q02890-1.281.281", "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": "Q02890-1.273.273", "start_pos": 273, "end_pos": 273, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "KKMSYCIAFGKDGVVDVSKR", "down_seq": "ILQNELPRDQIKEEDLKFLC", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "Abolishes enzyme activity.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02890-1.253.253", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q02890-1.257.257", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q02890-1.261.261", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02890-1.264.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02890-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q02890-1.268.268", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q02890-1.281.281", "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": "Q02890-1.281.281", "start_pos": 281, "end_pos": 281, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "FGKDGVVDVSKRYILQNELP", "down_seq": "DQIKEEDLKFLCQFITKRLR", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q02890-1.261.261", "categories": [ "mutagenesis_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q02890-1.264.264", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q02890-1.266.266", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q02890-1.268.268", "categories": [ "mutagenesis_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q02890-1.273.273", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.347.347", "start_pos": 347, "end_pos": 347, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "KTQETKSESVSAASKSSNRG", "down_seq": "ESGSADWKAQRGEDGK", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q02890-1.333.333", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.354.354", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q02890-1.358.358", "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": "Q02890-1.354.354", "start_pos": 354, "end_pos": 354, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "ESVSAASKSSNRGRESGSAD", "down_seq": "KAQRGEDGK", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q02890-1.347.347", "categories": [ "mutagenesis_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q02890-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q02890-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q02890-1.358.358", "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": "Q02890-1.358.358", "start_pos": 358, "end_pos": 358, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Site-directed mutagenesis study of yeast peptide:N-glycanase. Insight into the reaction mechanism of deglycosylation.", "journal": "The Journal of biological chemistry", "date": "2002-04-12", "authors": "Katiyar Samiksha, Suzuki Tadashi, Balgobin Bhumika J, Lennarz William J", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "reference": [ { "type": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "crossref": [ { "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "AASKSSNRGRESGSADWKAQ", "down_seq": "GEDGK", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "No effect.", "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" }, { "database": "PubMed", "id": "11812789", "url": "https://glygen.org/publication/PubMed/11812789" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q02890-1.347.347", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q02890-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q02890-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.354.354", "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": "Q02890-1.333.333", "start_pos": 333, "end_pos": 333, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q02890", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02890" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000006017", "url": "https://www.yeastgenome.org/locus/S000006017", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02890", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02890", "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": "ACRDEQEQIELIRGKTQETK", "down_seq": "ESVSAASKSSNRGRESGSAD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006017", "url": "https://www.yeastgenome.org/locus/S000006017" }, { "database": "iPTMnet", "id": "Q02890", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02890" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser333" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "upstream", "id": "Q02890-1.347.347", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q02890-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q02890-1.351.351", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q02890-1.349.349", "start_pos": 349, "end_pos": 349, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02890", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02890" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006017", "url": "https://www.yeastgenome.org/locus/S000006017", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02890", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02890", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QETKSESVSAASKSSNRGRE", "down_seq": "GSADWKAQRGEDGK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006017", "url": "https://www.yeastgenome.org/locus/S000006017" }, { "database": "iPTMnet", "id": "Q02890", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02890" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser349" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q02890-1.333.333", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.347.347", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q02890-1.351.351", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q02890-1.354.354", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q02890-1.358.358", "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": "Q02890-1.351.351", "start_pos": 351, "end_pos": 351, "uniprot_canonical_ac": "Q02890-1", "length": 363, "uniprot_id": "PNG1_YEAST", "protein_name": "Peptide-N(4)-(N-acetyl-beta-glucosaminyl)asparagine amidase", "refseq_ac": "NP_015229", "refseq_name": "peptide-N4-(N-acetyl-beta- glucosaminyl)asparagine amidase", "gene_name": "PNG1", "gene_names_uniprotkb": "PNG1", "gene_names_refseq": "PNG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q02890", "url": "https://www.uniprot.org/uniprotkb/Q02890" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q02890", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02890" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000006017", "url": "https://www.yeastgenome.org/locus/S000006017", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q02890", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02890", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TKSESVSAASKSSNRGRESG", "down_seq": "ADWKAQRGEDGK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000006017", "url": "https://www.yeastgenome.org/locus/S000006017" }, { "database": "iPTMnet", "id": "Q02890", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q02890" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser351" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "123", "end_pos": "123" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "165", "end_pos": "165" }, { "start_pos": "168", "end_pos": "168" }, { "start_pos": "174", "end_pos": "174" }, { "start_pos": "177", "end_pos": "177" }, { "start_pos": "187", "end_pos": "187" }, { "start_pos": "189", "end_pos": "189" }, { "start_pos": "191", "end_pos": "191" }, { "start_pos": "194", "end_pos": "194" }, { "start_pos": "198", "end_pos": "198" }, { "start_pos": "199", "end_pos": "199" }, { "start_pos": "203", "end_pos": "203" }, { "start_pos": "206", "end_pos": "206" }, { "start_pos": "210", "end_pos": "210" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "218", "end_pos": "218" }, { "start_pos": "220", "end_pos": "220" }, { "start_pos": "222", "end_pos": "222" }, { "start_pos": "224", "end_pos": "224" }, { "start_pos": "230", "end_pos": "230" }, { "start_pos": "231", "end_pos": "231" }, { "start_pos": "234", "end_pos": "234" }, { "start_pos": "235", "end_pos": "235" }, { "start_pos": "242", "end_pos": "242" }, { "start_pos": "251", "end_pos": "251" }, { "start_pos": "253", "end_pos": "253" }, { "start_pos": "257", "end_pos": "257" }, { "start_pos": "261", "end_pos": "261" }, { "start_pos": "264", "end_pos": "264" }, { "start_pos": "266", "end_pos": "266" }, { "start_pos": "268", "end_pos": "268" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "281", "end_pos": "281" }, { "start_pos": "347", "end_pos": "347" }, { "start_pos": "354", "end_pos": "354" }, { "start_pos": "358", "end_pos": "358" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "333", "end_pos": "333" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "351", "end_pos": "351" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q02890-1.333.333", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q02890-1.347.347", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q02890-1.349.349", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q02890-1.354.354", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q02890-1.358.358", "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": "Q03213-1.129.129", "start_pos": 129, "end_pos": 129, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "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": "Q03213", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03213" }, { "database": "O-GlcNAc Atlas", "id": "Q03213", "url": "https://oglcnac.org/atlas/detail/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "https://oglcnac.org/atlas/detail/Q03213", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GTSQPTETIGEKLSNEERVN", "down_seq": "NVSASNSTTAGTGRMLSQSL", "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": "Ser129", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03213", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03213" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser129" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03213-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03213-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03213-1.132.132", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03213-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03213-1.136.136", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03213-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03213-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03213-1.148.148", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.132.132", "start_pos": 132, "end_pos": 132, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "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": "Q03213", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03213" }, { "database": "O-GlcNAc Atlas", "id": "Q03213", "url": "https://oglcnac.org/atlas/detail/Q03213" } ], "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": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "https://oglcnac.org/atlas/detail/Q03213", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "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": "QPTETIGEKLSNEERVNSNV", "down_seq": "ASNSTTAGTGRMLSQSLTND", "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": "Ser132", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03213", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03213" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser132" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q03213-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03213-1.129.129", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03213-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03213-1.136.136", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03213-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03213-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03213-1.148.148", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03213-1.150.150", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.134.134", "start_pos": 134, "end_pos": 134, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "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": "Q03213", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03213" }, { "database": "O-GlcNAc Atlas", "id": "Q03213", "url": "https://oglcnac.org/atlas/detail/Q03213" } ], "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": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "https://oglcnac.org/atlas/detail/Q03213", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "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": "TETIGEKLSNEERVNSNVSA", "down_seq": "NSTTAGTGRMLSQSLTNDSP", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser134", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03213", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03213" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser134" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q03213-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03213-1.129.129", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03213-1.132.132", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03213-1.136.136", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03213-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03213-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03213-1.148.148", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03213-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03213-1.153.153", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.136.136", "start_pos": 136, "end_pos": 136, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "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": "Q03213", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03213" }, { "database": "O-GlcNAc Atlas", "id": "Q03213", "url": "https://oglcnac.org/atlas/detail/Q03213" } ], "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": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "https://oglcnac.org/atlas/detail/Q03213", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "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": "TIGEKLSNEERVNSNVSASN", "down_seq": "TTAGTGRMLSQSLTNDSPSN", "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": "Ser136", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03213", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03213" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser136" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q03213-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03213-1.129.129", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03213-1.132.132", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03213-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03213-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03213-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03213-1.148.148", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03213-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03213-1.153.153", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03213-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "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": "VNEDAIGINLDLSLPTHISP", "down_seq": "TGSESASGSNASTLRNDGNA", "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": "Thr72", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q03213-1.70.70", "categories": [ "mutagenesis_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": "Q03213-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "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": "Q03213", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03213" }, { "database": "O-GlcNAc Atlas", "id": "Q03213", "url": "https://oglcnac.org/atlas/detail/Q03213" } ], "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": "Q03213", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03213", "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": "Q03213", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03213" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_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": "Q03213-1.153.153", "start_pos": 153, "end_pos": 153, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Osmostress-induced transcription by Hot1 depends on a Hog1-mediated recruitment of the RNA Pol II.", "journal": "The EMBO journal", "date": "2003-05-15", "authors": "Alepuz Paula M, de Nadal Eul\u00e0lia, Zapater Meritxell, Ammerer Gustav, Posas Francesc", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Identifying protein kinase-specific effectors of the osmostress response in yeast.", "journal": "Science signaling", "date": "2017-03-07", "authors": "Romanov Natalie, Hollenstein David Maria, Janschitz Marion, Ammerer Gustav, Anrather Dorothea, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASNSTTAGTGRMLSQSLTND", "down_seq": "PSNEISTDQLKIFQRMDEMS", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Impairs HOT1 phosphorylation; when associated with A-30; A-70; A-360 and A-410.", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "28270554", "url": "https://glygen.org/publication/PubMed/28270554" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser153" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03213-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q03213-1.136.136", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03213-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03213-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03213-1.148.148", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03213-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03213-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.30.30", "start_pos": 30, "end_pos": 30, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Osmostress-induced transcription by Hot1 depends on a Hog1-mediated recruitment of the RNA Pol II.", "journal": "The EMBO journal", "date": "2003-05-15", "authors": "Alepuz Paula M, de Nadal Eul\u00e0lia, Zapater Meritxell, Ammerer Gustav, Posas Francesc", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ] } ], "crossref": [ { "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "CIVRTKIYRITISFDYSTLM", "down_seq": "PFFLFLMMPTTLKDGYRMNS", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Impairs HOT1 phosphorylation; when associated with A-70; A-153; A-360 and A-410.", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "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": "Q03213-1.360.360", "start_pos": 360, "end_pos": 360, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Osmostress-induced transcription by Hot1 depends on a Hog1-mediated recruitment of the RNA Pol II.", "journal": "The EMBO journal", "date": "2003-05-15", "authors": "Alepuz Paula M, de Nadal Eul\u00e0lia, Zapater Meritxell, Ammerer Gustav, Posas Francesc", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "Novel interconnections of HOG signaling revealed by combined use of two proteomic software packages.", "journal": "Cell communication and signaling : CCS", "date": "2019-06-17", "authors": "Janschitz Marion, Romanov Natalie, Varnavides Gina, Hollenstein David Maria, G\u00e9recov\u00e1 Gabriela, Ammerer Gustav, Hartl Markus, Reiter Wolfgang", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NQNQSQVLIHNTNTHQQVNR", "down_seq": "PISFPNASTDKPFKLNPNGI", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Impairs HOT1 phosphorylation; when associated with A-30; A-70; A-153 and A-410.", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "31208443", "url": "https://glygen.org/publication/PubMed/31208443" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser360" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.410.410", "start_pos": 410, "end_pos": 410, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Osmostress-induced transcription by Hot1 depends on a Hog1-mediated recruitment of the RNA Pol II.", "journal": "The EMBO journal", "date": "2003-05-15", "authors": "Alepuz Paula M, de Nadal Eul\u00e0lia, Zapater Meritxell, Ammerer Gustav, Posas Francesc", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ] } ], "crossref": [ { "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNNASTNDHASAAQKPISAL", "down_seq": "PLTNSHNSTTSMNYTNSSIH", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Impairs HOT1 phosphorylation; when associated with A-30; A-70; A-153 and A-360.", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ], "site_lbl": "Ser410" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Osmostress-induced transcription by Hot1 depends on a Hog1-mediated recruitment of the RNA Pol II.", "journal": "The EMBO journal", "date": "2003-05-15", "authors": "Alepuz Paula M, de Nadal Eul\u00e0lia, Zapater Meritxell, Ammerer Gustav, Posas Francesc", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ] } ], "crossref": [ { "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SQVNEDAIGINLDLSLPTHI", "down_seq": "PTTGSESASGSNASTLRNDG", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "A", "comment": "Impairs HOT1 phosphorylation; when associated with A-30; A-153; A-360 and A-410.", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "12743037", "url": "https://glygen.org/publication/PubMed/12743037" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q03213-1.72.72", "categories": [ "glycosylation_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": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "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": "NALDGGLLRTSAAISAPTGT", "down_seq": "QPTETIGEKLSNEERVNSNV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser111" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "upstream", "id": "Q03213-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03213-1.129.129", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.122.122", "start_pos": 122, "end_pos": 122, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "AAISAPTGTSQPTETIGEKL", "down_seq": "NEERVNSNVSASNSTTAGTG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser122" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q03213-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03213-1.129.129", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03213-1.132.132", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03213-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03213-1.136.136", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03213-1.137.137", "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": "Q03213-1.137.137", "start_pos": 137, "end_pos": 137, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "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": "IGEKLSNEERVNSNVSASNS", "down_seq": "TAGTGRMLSQSLTNDSPSNE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr137" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q03213-1.122.122", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03213-1.129.129", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03213-1.132.132", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03213-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03213-1.136.136", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03213-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03213-1.148.148", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03213-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03213-1.153.153", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03213-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.146.146", "start_pos": 146, "end_pos": 146, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "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": "RVNSNVSASNSTTAGTGRML", "down_seq": "QSLTNDSPSNEISTDQLKIF", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser146" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03213-1.129.129", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q03213-1.132.132", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03213-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03213-1.136.136", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03213-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03213-1.148.148", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03213-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03213-1.153.153", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03213-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.148.148", "start_pos": 148, "end_pos": 148, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NSNVSASNSTTAGTGRMLSQ", "down_seq": "LTNDSPSNEISTDQLKIFQR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser148" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03213-1.129.129", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03213-1.132.132", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q03213-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03213-1.136.136", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q03213-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03213-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03213-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03213-1.153.153", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03213-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.150.150", "start_pos": 150, "end_pos": 150, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "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": "NVSASNSTTAGTGRMLSQSL", "down_seq": "NDSPSNEISTDQLKIFQRMD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "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": "Thr150" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03213-1.132.132", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03213-1.134.134", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q03213-1.136.136", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03213-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03213-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03213-1.148.148", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03213-1.153.153", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03213-1.155.155", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.155.155", "start_pos": 155, "end_pos": 155, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "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": "NSTTAGTGRMLSQSLTNDSP", "down_seq": "NEISTDQLKIFQRMDEMSAR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "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": "Ser155" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03213-1.136.136", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q03213-1.137.137", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03213-1.146.146", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03213-1.148.148", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03213-1.150.150", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03213-1.153.153", "categories": [ "mutagenesis_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.387.387", "start_pos": 387, "end_pos": 387, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "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": "ASTDKPFKLNPNGIKRRRRN", "down_seq": "QSNNNASTNDHASAAQKPIS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr387" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.520.520", "start_pos": 520, "end_pos": 520, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "LLPSGKSGVNTNIVNRNRAS", "down_seq": "LPSYPKPMTVKSNVDDDGYQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr520" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03213-1.594.594", "start_pos": 594, "end_pos": 594, "uniprot_canonical_ac": "Q03213-1", "length": 719, "uniprot_id": "HOT1_YEAST", "protein_name": "High-osmolarity-induced transcription protein 1", "refseq_ac": "NP_013895", "refseq_name": "Hot1p", "gene_name": "HOT1", "gene_names_uniprotkb": "HOT1; YM8010.02", "gene_names_refseq": "HOT1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03213", "url": "https://www.uniprot.org/uniprotkb/Q03213" } ], "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": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "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": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213", "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": "DMKNASINKRRRSLHHKKSN", "down_seq": "LNGRRKLHGESATKPNINSD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004783", "url": "https://www.yeastgenome.org/locus/S000004783" }, { "database": "iPTMnet", "id": "Q03213", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03213" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser594" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "72", "end_pos": "72" } ] }, { "type": "mutagenesis", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "30", "end_pos": "30" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "70", "end_pos": "70" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "122", "end_pos": "122" }, { "start_pos": "129", "end_pos": "129" }, { "start_pos": "132", "end_pos": "132" }, { "start_pos": "134", "end_pos": "134" }, { "start_pos": "136", "end_pos": "136" }, { "start_pos": "137", "end_pos": "137" }, { "start_pos": "146", "end_pos": "146" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "150", "end_pos": "150" }, { "start_pos": "153", "end_pos": "153" }, { "start_pos": "155", "end_pos": "155" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "387", "end_pos": "387" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "520", "end_pos": "520" }, { "start_pos": "594", "end_pos": "594" }, { "start_pos": "70", "end_pos": "70" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03214-1.1232.1232", "start_pos": 1232, "end_pos": 1232, "uniprot_canonical_ac": "Q03214-1", "length": 1411, "uniprot_id": "ECM5_YEAST", "protein_name": "Protein ECM5", "refseq_ac": "NP_013901", "refseq_name": "Ecm5p", "gene_name": "ECM5", "gene_names_uniprotkb": "ECM5; YM8010.06", "gene_names_refseq": "ECM5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03214", "url": "https://www.uniprot.org/uniprotkb/Q03214" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004788", "url": "https://www.yeastgenome.org/locus/S000004788", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ILPSIFRCLDLKSDKYIPLE", "down_seq": "CSKRQTKYCFCRRVEEGTAM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004788", "url": "https://www.yeastgenome.org/locus/S000004788" }, { "database": "iPTMnet", "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1232" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1232", "end_pos": "1232" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "306", "end_pos": "306" }, { "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": "Q03214-1.212.212", "start_pos": 212, "end_pos": 212, "uniprot_canonical_ac": "Q03214-1", "length": 1411, "uniprot_id": "ECM5_YEAST", "protein_name": "Protein ECM5", "refseq_ac": "NP_013901", "refseq_name": "Ecm5p", "gene_name": "ECM5", "gene_names_uniprotkb": "ECM5; YM8010.06", "gene_names_refseq": "ECM5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03214", "url": "https://www.uniprot.org/uniprotkb/Q03214" } ], "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": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214", "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": "YAKLYNFHNKIKKSTLTRIP", "down_seq": "IDKRTLDLYRLRSCVKLRGG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser212" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1232", "end_pos": "1232" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "306", "end_pos": "306" }, { "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": "Q03214-1.306.306", "start_pos": 306, "end_pos": 306, "uniprot_canonical_ac": "Q03214-1", "length": 1411, "uniprot_id": "ECM5_YEAST", "protein_name": "Protein ECM5", "refseq_ac": "NP_013901", "refseq_name": "Ecm5p", "gene_name": "ECM5", "gene_names_uniprotkb": "ECM5; YM8010.06", "gene_names_refseq": "ECM5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03214", "url": "https://www.uniprot.org/uniprotkb/Q03214" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004788", "url": "https://www.yeastgenome.org/locus/S000004788", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNEKNEDMVESEIFRHSNSR", "down_seq": "RDEEEPLHKKAKIHRDVFRA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004788", "url": "https://www.yeastgenome.org/locus/S000004788" }, { "database": "iPTMnet", "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser306" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1232", "end_pos": "1232" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "306", "end_pos": "306" }, { "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": "Q03214-1.6.6", "start_pos": 6, "end_pos": 6, "uniprot_canonical_ac": "Q03214-1", "length": 1411, "uniprot_id": "ECM5_YEAST", "protein_name": "Protein ECM5", "refseq_ac": "NP_013901", "refseq_name": "Ecm5p", "gene_name": "ECM5", "gene_names_uniprotkb": "ECM5; YM8010.06", "gene_names_refseq": "ECM5", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03214", "url": "https://www.uniprot.org/uniprotkb/Q03214" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004788", "url": "https://www.yeastgenome.org/locus/S000004788", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSGHD", "down_seq": "VTKISHILNEPVNEKVMVQN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004788", "url": "https://www.yeastgenome.org/locus/S000004788" }, { "database": "iPTMnet", "id": "Q03214", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03214" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser6" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "1232", "end_pos": "1232" }, { "start_pos": "212", "end_pos": "212" }, { "start_pos": "306", "end_pos": "306" }, { "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": "Q03322-1.205.206", "start_pos": 205, "end_pos": 206, "uniprot_canonical_ac": "Q03322-1", "length": 224, "uniprot_id": "TLG1_YEAST", "protein_name": "t-SNARE affecting a late Golgi compartment protein 1", "refseq_ac": "NP_010756", "refseq_name": "Tlg1p", "gene_name": "TLG1", "gene_names_uniprotkb": "TLG1; D8035.11", "gene_names_refseq": "TLG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03322", "url": "https://www.uniprot.org/uniprotkb/Q03322" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Swf1-dependent palmitoylation of the SNARE Tlg1 prevents its ubiquitination and degradation.", "journal": "The EMBO journal", "date": "2005-07-20", "authors": "Valdez-Taubas Javier, Pelham Hugh", "evidence": [ { "database": "UniProtKB", "id": "Q03322", "url": "https://www.uniprot.org/uniprotkb/Q03322" } ], "reference": [ { "type": "PubMed", "id": "15973437", "url": "https://glygen.org/publication/PubMed/15973437" } ] } ], "crossref": [ { "id": "Q03322", "url": "https://www.uniprot.org/uniprotkb/Q03322", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "15973437", "url": "https://glygen.org/publication/PubMed/15973437", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "CC", "start_aa": "C", "up_seq": "ARGRRQLEWVYEKNKEKYDD", "down_seq": "IGLLIVVLIVLLVLAFIA", "mutagenesis": [ { "sequence_org": "CC", "sequence_mut": "LL", "comment": "Not palmitoylated, rapidly degraded in a TUL1-dependent manner.", "evidence": [ { "database": "UniProtKB", "id": "Q03322", "url": "https://www.uniprot.org/uniprotkb/Q03322" }, { "database": "PubMed", "id": "15973437", "url": "https://glygen.org/publication/PubMed/15973437" } ] }, { "sequence_org": "CC", "sequence_mut": "SS", "comment": "Not palmitoylated, rapidly degraded in a TUL1-dependent manner.", "evidence": [ { "database": "UniProtKB", "id": "Q03322", "url": "https://www.uniprot.org/uniprotkb/Q03322" }, { "database": "PubMed", "id": "15973437", "url": "https://glygen.org/publication/PubMed/15973437" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "205", "end_pos": "206" }, { "start_pos": "31", "end_pos": "31" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "31", "end_pos": "31" } ] } ], "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": "Q03322-1.31.31", "start_pos": 31, "end_pos": 31, "uniprot_canonical_ac": "Q03322-1", "length": 224, "uniprot_id": "TLG1_YEAST", "protein_name": "t-SNARE affecting a late Golgi compartment protein 1", "refseq_ac": "NP_010756", "refseq_name": "Tlg1p", "gene_name": "TLG1", "gene_names_uniprotkb": "TLG1; D8035.11", "gene_names_refseq": "TLG1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03322", "url": "https://www.uniprot.org/uniprotkb/Q03322" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "t-SNARE phosphorylation regulates endocytosis in yeast.", "journal": "Molecular biology of the cell", "date": "2002-05", "authors": "Gurunathan Sangiliyandi, Marash Michael, Weinberger Adina, Gerst Jeffrey E", "evidence": [ { "database": "UniProtKB", "id": "Q03322", "url": "https://www.uniprot.org/uniprotkb/Q03322" }, { "database": "iPTMnet", "id": "Q03322", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03322" } ], "reference": [ { "type": "PubMed", "id": "12006655", "url": "https://glygen.org/publication/PubMed/12006655" } ] } ], "crossref": [ { "id": "Q03322", "url": "https://www.uniprot.org/uniprotkb/Q03322", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "12006655", "url": "https://glygen.org/publication/PubMed/12006655", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03322", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03322", "database": "iPTMnet", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "VVKDTKEQLNRINNYITRHN", "down_seq": "AGDDDQEEEIQDILKDVEET", "mutagenesis": [ { "sequence_org": "T", "sequence_mut": "A", "comment": "Results in an aktivated t-SNARE that confers endocytosis, but not exocytosis.", "evidence": [ { "database": "UniProtKB", "id": "Q03322", "url": "https://www.uniprot.org/uniprotkb/Q03322" }, { "database": "PubMed", "id": "12006655", "url": "https://glygen.org/publication/PubMed/12006655" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine; by PKA", "evidence": [ { "database": "UniProtKB", "id": "Q03322", "url": "https://www.uniprot.org/uniprotkb/Q03322" }, { "database": "iPTMnet", "id": "Q03322", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03322" }, { "database": "PubMed", "id": "12006655", "url": "https://glygen.org/publication/PubMed/12006655" } ], "site_lbl": "Thr31" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "205", "end_pos": "206" }, { "start_pos": "31", "end_pos": "31" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "31", "end_pos": "31" } ] } ], "categories": [ "mutagenesis_flag", "phosphorylation_flag" ], "glycosylation": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03327-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "Q03327-1", "length": 502, "uniprot_id": "UGO1_YEAST", "protein_name": "Mitochondrial fusion and transport protein UGO1", "refseq_ac": "NP_010758", "refseq_name": "mitofusin complex protein UGO1", "gene_name": "UGO1", "gene_names_uniprotkb": "UGO1", "gene_names_refseq": "UGO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03327", "url": "https://www.uniprot.org/uniprotkb/Q03327" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03327", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03327" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002878", "url": "https://www.yeastgenome.org/locus/S000002878", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03327", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03327", "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": "DEGVVDPHGYTIASKLNVIN", "down_seq": "SPTTKRMANALFKSSPMKKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002878", "url": "https://www.yeastgenome.org/locus/S000002878" }, { "database": "iPTMnet", "id": "Q03327", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03327" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser55" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q03327-1.56.56", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03327-1.56.56", "start_pos": 56, "end_pos": 56, "uniprot_canonical_ac": "Q03327-1", "length": 502, "uniprot_id": "UGO1_YEAST", "protein_name": "Mitochondrial fusion and transport protein UGO1", "refseq_ac": "NP_010758", "refseq_name": "mitofusin complex protein UGO1", "gene_name": "UGO1", "gene_names_uniprotkb": "UGO1", "gene_names_refseq": "UGO1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03327", "url": "https://www.uniprot.org/uniprotkb/Q03327" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03327", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03327" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03327", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03327" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002878", "url": "https://www.yeastgenome.org/locus/S000002878", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03327", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03327", "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": "EGVVDPHGYTIASKLNVINS", "down_seq": "PTTKRMANALFKSSPMKKLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002878", "url": "https://www.yeastgenome.org/locus/S000002878" }, { "database": "iPTMnet", "id": "Q03327", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03327" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser56" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "55", "end_pos": "55" }, { "start_pos": "56", "end_pos": "56" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q03327-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03337-1.117.117", "start_pos": 117, "end_pos": 117, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Perturbation of the yeast N-acetyltransferase NatB induces elevation of protein phosphorylation levels.", "journal": "BMC genomics", "date": "2010-12-02", "authors": "Helbig Andreas O, Rosati Sara, Pijnappel Pim W W M, van Breukelen Bas, Timmers Marc H T H, Mohammed Shabaz, Slijper Monique, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880", "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": "RLLELLNFRASVSPSSLPRA", "down_seq": "AFLSQNESSSKLSNASNSPG", "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": "Ser117", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880" }, { "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": "Ser117" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q03337-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03337-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03337-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03337-1.121.121", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03337-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03337-1.121.121", "start_pos": 121, "end_pos": 121, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LLNFRASVSPSSLPRASAFL", "down_seq": "QNESSSKLSNASNSPGMLAN", "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": "Ser121", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q03337-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03337-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03337-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03337-1.117.117", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03337-1.135.135", "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": "Q03337-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" }, { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880", "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": "RASVSPSSLPRASAFLSQNE", "down_seq": "SSKLSNASNSPGMLANSSTA", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser125", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser125" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q03337-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q03337-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03337-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03337-1.117.117", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03337-1.121.121", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03337-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03337-1.142.142", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03337-1.143.143", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03337-1.126.126", "start_pos": 126, "end_pos": 126, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" }, { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] }, { "title": "Glucose intake hampers PKA-regulated HSP90 chaperone activity.", "journal": "eLife", "date": "2018-12-05", "authors": "Chen Yu-Chen, Jiang Pei-Heng, Chen Hsuan-Ming, Chen Chang-Han, Wang Yi-Ting, Chen Yu-Ju, Yu Chia-Jung, Teng Shu-Chun", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337", "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": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ASVSPSSLPRASAFLSQNES", "down_seq": "SKLSNASNSPGMLANSSTAT", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser126", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" }, { "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": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser126" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03337-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03337-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q03337-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03337-1.117.117", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03337-1.121.121", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03337-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03337-1.142.142", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03337-1.143.143", "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": "Q03337-1.127.127", "start_pos": 127, "end_pos": 127, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SVSPSSLPRASAFLSQNESS", "down_seq": "KLSNASNSPGMLANSSTATS", "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": "Ser127", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880" }, { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser127" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03337-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03337-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03337-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03337-1.117.117", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03337-1.121.121", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03337-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03337-1.142.142", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03337-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03337-1.147.147", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03337-1.130.130", "start_pos": 130, "end_pos": 130, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PSSLPRASAFLSQNESSSKL", "down_seq": "NASNSPGMLANSSTATSASA", "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": "Ser130", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03337-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q03337-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03337-1.117.117", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03337-1.121.121", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03337-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03337-1.142.142", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03337-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03337-1.147.147", "categories": [ "glycosylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03337-1.149.149", "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": "Q03337-1.133.133", "start_pos": 133, "end_pos": 133, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LPRASAFLSQNESSSKLSNA", "down_seq": "NSPGMLANSSTATSASANER", "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": "Ser133", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q03337-1.117.117", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03337-1.121.121", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03337-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03337-1.142.142", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03337-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03337-1.147.147", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03337-1.149.149", "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": "Q03337-1.135.135", "start_pos": 135, "end_pos": 135, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337", "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": "RASAFLSQNESSSKLSNASN", "down_seq": "PGMLANSSTATSASANERLQ", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser135", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880" }, { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser135" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03337-1.117.117", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q03337-1.121.121", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03337-1.142.142", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03337-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03337-1.147.147", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03337-1.149.149", "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": "Q03337-1.142.142", "start_pos": 142, "end_pos": 142, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QNESSSKLSNASNSPGMLAN", "down_seq": "STATSASANERLQEKQTESL", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser142", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03337-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03337-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03337-1.147.147", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03337-1.149.149", "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": "Q03337-1.143.143", "start_pos": 143, "end_pos": 143, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NESSSKLSNASNSPGMLANS", "down_seq": "TATSASANERLQEKQTESLS", "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": "Ser143", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03337-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03337-1.142.142", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03337-1.147.147", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03337-1.149.149", "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": "Q03337-1.147.147", "start_pos": 147, "end_pos": 147, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SKLSNASNSPGMLANSSTAT", "down_seq": "ASANERLQEKQTESLSNYIT", "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": "Ser147", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03337-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03337-1.142.142", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03337-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03337-1.149.149", "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": "Q03337-1.149.149", "start_pos": 149, "end_pos": 149, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LSNASNSPGMLANSSTATSA", "down_seq": "ANERLQEKQTESLSNYITKM", "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": "Ser149", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03337-1.133.133", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q03337-1.135.135", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03337-1.142.142", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03337-1.143.143", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03337-1.147.147", "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": "Q03337-1.19.19", "start_pos": 19, "end_pos": 19, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSQRIIQPSASDQQFPGK", "down_seq": "DGYEYTVGPKQAITSEASTT", "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": "Ser19", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03337-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03337-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03337-1.34.34", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03337-1.37.37", "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": "Q03337-1.34.34", "start_pos": 34, "end_pos": 34, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QFPGKSDGYEYTVGPKQAIT", "down_seq": "EASTTYIPSRIYSESLLFKR", "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": "Ser34", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q03337-1.19.19", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03337-1.37.37", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03337-1.43.43", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03337-1.47.47", "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": "Q03337-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GKSDGYEYTVGPKQAITSEA", "down_seq": "TTYIPSRIYSESLLFKRQEA", "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": "Ser37", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03337-1.19.19", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03337-1.34.34", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03337-1.43.43", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03337-1.47.47", "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": "Q03337-1.43.43", "start_pos": 43, "end_pos": 43, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EYTVGPKQAITSEASTTYIP", "down_seq": "RIYSESLLFKRQEASLSAMA", "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": "Ser43", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03337", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q03337-1.34.34", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03337-1.37.37", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03337-1.47.47", "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": "Q03337-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" }, { "database": "O-GlcNAc Atlas", "id": "Q03337", "url": "https://oglcnac.org/atlas/detail/Q03337" } ], "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": "Q03337", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337", "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": "Q03337", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03337" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "upstream", "id": "Q03337-1.9.9", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03337-1.19.19", "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" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 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": "Q03337-1.109.109", "start_pos": 109, "end_pos": 109, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" }, { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "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": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880", "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": "DYGHNIGIRLLELLNFRASV", "down_seq": "PSSLPRASAFLSQNESSSKL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880" }, { "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": "Ser109" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q03337-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03337-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03337-1.117.117", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03337-1.121.121", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03337-1.127.127", "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": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03337-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337", "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": "GHNIGIRLLELLNFRASVSP", "down_seq": "SLPRASAFLSQNESSSKLSN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880" }, { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser111" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q03337-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03337-1.112.112", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03337-1.117.117", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03337-1.121.121", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03337-1.130.130", "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": "Q03337-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337", "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": "HNIGIRLLELLNFRASVSPS", "down_seq": "LPRASAFLSQNESSSKLSNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880" }, { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" }, { "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": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q03337-1.109.109", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03337-1.111.111", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03337-1.117.117", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03337-1.121.121", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03337-1.125.125", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03337-1.126.126", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03337-1.127.127", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03337-1.130.130", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03337-1.47.47", "start_pos": 47, "end_pos": 47, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "GPKQAITSEASTTYIPSRIY", "down_seq": "ESLLFKRQEASLSAMAFLFQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880" }, { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser47" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03337-1.34.34", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03337-1.37.37", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03337-1.43.43", "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": "Q03337-1.9.9", "start_pos": 9, "end_pos": 9, "uniprot_canonical_ac": "Q03337-1", "length": 283, "uniprot_id": "TRS31_YEAST", "protein_name": "Trafficking protein particle complex subunit 31", "refseq_ac": "NP_010760", "refseq_name": "TRAPP subunit TRS31", "gene_name": "TRS31", "gene_names_uniprotkb": "TRS31", "gene_names_refseq": "TRS31", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03337", "url": "https://www.uniprot.org/uniprotkb/Q03337" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337", "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": "MSQRIIQP", "down_seq": "ASDQQFPGKSDGYEYTVGPK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002880", "url": "https://www.yeastgenome.org/locus/S000002880" }, { "database": "iPTMnet", "id": "Q03337", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03337" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser9" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "117", "end_pos": "117" }, { "start_pos": "121", "end_pos": "121" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "130", "end_pos": "130" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "143", "end_pos": "143" }, { "start_pos": "147", "end_pos": "147" }, { "start_pos": "149", "end_pos": "149" }, { "start_pos": "19", "end_pos": "19" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "43", "end_pos": "43" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "109", "end_pos": "109" }, { "start_pos": "111", "end_pos": "111" }, { "start_pos": "112", "end_pos": "112" }, { "start_pos": "117", "end_pos": "117" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "126", "end_pos": "126" }, { "start_pos": "127", "end_pos": "127" }, { "start_pos": "135", "end_pos": "135" }, { "start_pos": "47", "end_pos": "47" }, { "start_pos": "9", "end_pos": "9" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q03337-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03337-1.19.19", "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": "Q03433-1.153.153", "start_pos": 153, "end_pos": 153, "uniprot_canonical_ac": "Q03433-1", "length": 280, "uniprot_id": "VPS71_YEAST", "protein_name": "Vacuolar protein sorting-associated protein 71", "refseq_ac": "NP_013671", "refseq_name": "Vps71p", "gene_name": "VPS71", "gene_names_uniprotkb": "VPS71; SWC6; YM8054.02C", "gene_names_refseq": "SWC6; VPS71", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03433", "url": "https://www.uniprot.org/uniprotkb/Q03433" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03433", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03433" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004505", "url": "https://www.yeastgenome.org/locus/S000004505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03433", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03433", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "STTKPISQTSDGLSALMGGS", "down_seq": "FVKEHSKYGHGWVLKPETLR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004505", "url": "https://www.yeastgenome.org/locus/S000004505" }, { "database": "iPTMnet", "id": "Q03433", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03433" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser153" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03433-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "Q03433-1", "length": 280, "uniprot_id": "VPS71_YEAST", "protein_name": "Vacuolar protein sorting-associated protein 71", "refseq_ac": "NP_013671", "refseq_name": "Vps71p", "gene_name": "VPS71", "gene_names_uniprotkb": "VPS71; SWC6; YM8054.02C", "gene_names_refseq": "SWC6; VPS71", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03433", "url": "https://www.uniprot.org/uniprotkb/Q03433" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03433", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03433" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004505", "url": "https://www.yeastgenome.org/locus/S000004505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03433", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03433", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKINKQGTISTSRPVKRINY", "down_seq": "LADLEARLYTSRSEGDGNSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004505", "url": "https://www.yeastgenome.org/locus/S000004505" }, { "database": "iPTMnet", "id": "Q03433", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03433" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser52" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03433-1.85.85", "start_pos": 85, "end_pos": 85, "uniprot_canonical_ac": "Q03433-1", "length": 280, "uniprot_id": "VPS71_YEAST", "protein_name": "Vacuolar protein sorting-associated protein 71", "refseq_ac": "NP_013671", "refseq_name": "Vps71p", "gene_name": "VPS71", "gene_names_uniprotkb": "VPS71; SWC6; YM8054.02C", "gene_names_refseq": "SWC6; VPS71", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03433", "url": "https://www.uniprot.org/uniprotkb/Q03433" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03433", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03433" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004505", "url": "https://www.yeastgenome.org/locus/S000004505", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03433", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03433", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SEGDGNSISRQDDRNSKNSH", "down_seq": "FEERYTQQEILQSDRRFMEL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004505", "url": "https://www.yeastgenome.org/locus/S000004505" }, { "database": "iPTMnet", "id": "Q03433", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03433" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser85" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "153", "end_pos": "153" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "85", "end_pos": "85" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03579-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "KTIVKRITRDYEPNDEHLSF", "down_seq": "IIENDNVPPVHYPIHEDKGE", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "About 90% loss in enzymatic activity of the LAC1-LIP1 complex.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "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": "Q03579-1.125.125", "start_pos": 125, "end_pos": 125, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "ENDNVPPVHYPIHEDKGEPG", "down_seq": "VAYVGYDTDSELVQELCADS", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "About 95% loss in enzymatic activity of the LAC1-LIP1 complex; when associated with A-78, A-81 and A-148.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "upstream", "id": "Q03579-1.142.142", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03579-1.142.142", "start_pos": 142, "end_pos": 142, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "EPGYVAYVGYDTDSELVQEL", "down_seq": "ADSTIYHM", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "About 90% loss in enzymatic activity of the LAC1-LIP1 complex.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03579-1.125.125", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03579-1.148.148", "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": "Q03579-1.148.148", "start_pos": 148, "end_pos": 148, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "YVGYDTDSELVQELCADSTI", "down_seq": "HM", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "About 95% loss in enzymatic activity of the LAC1-LIP1 complex; when associated with A-78, A-81 and A-125.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q03579-1.142.142", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03579-1.37.37", "start_pos": 37, "end_pos": 37, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "V", "start_aa": "V", "up_seq": "KPKIFNLFRVCFISLLLIAA", "down_seq": "EYFKYGTRINYEWFHCTPIK", "mutagenesis": [ { "sequence_org": "V", "sequence_mut": "F", "comment": "Partially impairs LAC1-LIP1 complex formation; when associated with F-41.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] }, { "sequence_org": "V", "sequence_mut": "Y", "comment": "Partially impairs LAC1-LIP1 complex formation; when associated with Y-41.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q03579-1.40.40", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03579-1.41.41", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03579-1.50.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03579-1.51.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03579-1.52.52", "categories": [ "mutagenesis_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03579-1.53.53", "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": "Q03579-1.40.40", "start_pos": 40, "end_pos": 40, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] }, { "title": "Structure of the yeast ceramide synthase.", "journal": "Nature structural & molecular biology", "date": "2024-11-11", "authors": "Sch\u00e4fer Jan-Hannes, Clausmeyer Lena, K\u00f6rner Carolin, Esch Bianca M, Wolf Verena N, Sapia Jennifer, Ahmed Yara, Walter Stefan, Vanni Stefano, Januliene Dovile, Moeller Arne, Fr\u00f6hlich Florian", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "39528796", "url": "https://glygen.org/publication/PubMed/39528796" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] }, { "id": "39528796", "url": "https://glygen.org/publication/PubMed/39528796", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "IFNLFRVCFISLLLIAAVEY", "down_seq": "KYGTRINYEWFHCTPIKEPQ", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "A", "comment": "About 60% loss in enzymatic activity of the LAC1-LIP1 complex.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] }, { "sequence_org": "F", "sequence_mut": "R", "comment": "Abolishes the enzymatic activity of the LAC1-LIP1 complex in vitro and leads to the accumulation of phytosphingosine in vivo.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" }, { "database": "PubMed", "id": "39528796", "url": "https://glygen.org/publication/PubMed/39528796" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q03579-1.37.37", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03579-1.41.41", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03579-1.50.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03579-1.51.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03579-1.52.52", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03579-1.53.53", "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": "Q03579-1.41.41", "start_pos": 41, "end_pos": 41, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "K", "start_aa": "K", "up_seq": "FNLFRVCFISLLLIAAVEYF", "down_seq": "YGTRINYEWFHCTPIKEPQS", "mutagenesis": [ { "sequence_org": "K", "sequence_mut": "F", "comment": "Partially impairs LAC1-LIP1 complex formation; when associated with F-37.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] }, { "sequence_org": "K", "sequence_mut": "Y", "comment": "Partially impairs LAC1-LIP1 complex formation; when associated with Y-37.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q03579-1.37.37", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03579-1.40.40", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03579-1.50.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03579-1.51.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03579-1.52.52", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03579-1.53.53", "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": "Q03579-1.50.51", "start_pos": 50, "end_pos": 51, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure of the yeast ceramide synthase.", "journal": "Nature structural & molecular biology", "date": "2024-11-11", "authors": "Sch\u00e4fer Jan-Hannes, Clausmeyer Lena, K\u00f6rner Carolin, Esch Bianca M, Wolf Verena N, Sapia Jennifer, Ahmed Yara, Walter Stefan, Vanni Stefano, Januliene Dovile, Moeller Arne, Fr\u00f6hlich Florian", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "39528796", "url": "https://glygen.org/publication/PubMed/39528796" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "39528796", "url": "https://glygen.org/publication/PubMed/39528796", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "WF", "start_aa": "W", "up_seq": "SLLLIAAVEYFKYGTRINYE", "down_seq": "HCTPIKEPQSGSVIKLWARG", "mutagenesis": [ { "sequence_org": "WF", "sequence_mut": "AA", "comment": "Does not affect the ceramide synthase complex stability but reduces the enzymatic activity of the complex in vitro.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "39528796", "url": "https://glygen.org/publication/PubMed/39528796" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03579-1.37.37", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03579-1.40.40", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03579-1.41.41", "categories": [ "mutagenesis_flag" ] }, { "distance": 0, "direction": "upstream", "id": "Q03579-1.51.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03579-1.52.52", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03579-1.53.53", "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": "Q03579-1.51.51", "start_pos": 51, "end_pos": 51, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "F", "start_aa": "F", "up_seq": "LLLIAAVEYFKYGTRINYEW", "down_seq": "HCTPIKEPQSGSVIKLWARG", "mutagenesis": [ { "sequence_org": "F", "sequence_mut": "R", "comment": "Does not affect LAC1-LIP1 complex formation but abolishes enzymatic activity.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q03579-1.37.37", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q03579-1.40.40", "categories": [ "mutagenesis_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03579-1.41.41", "categories": [ "mutagenesis_flag" ] }, { "distance": 0, "direction": "downstream", "id": "Q03579-1.50.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03579-1.52.52", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03579-1.53.53", "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": "Q03579-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "H", "start_aa": "H", "up_seq": "LLIAAVEYFKYGTRINYEWF", "down_seq": "CTPIKEPQSGSVIKLWARGG", "mutagenesis": [ { "sequence_org": "H", "sequence_mut": "A", "comment": "Does not affect LAC1-LIP1 complex formation but abolishes enzymatic activity.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q03579-1.37.37", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03579-1.40.40", "categories": [ "mutagenesis_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q03579-1.41.41", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03579-1.50.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03579-1.51.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03579-1.53.53", "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": "Q03579-1.53.53", "start_pos": 53, "end_pos": 53, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "LIAAVEYFKYGTRINYEWFH", "down_seq": "TPIKEPQSGSVIKLWARGGP", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "About 90% loss in enzymatic activity of the LAC1-LIP1 complex.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q03579-1.37.37", "categories": [ "mutagenesis_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03579-1.40.40", "categories": [ "mutagenesis_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03579-1.41.41", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03579-1.50.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03579-1.51.51", "categories": [ "mutagenesis_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03579-1.52.52", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03579-1.74.74", "start_pos": 74, "end_pos": 74, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TPIKEPQSGSVIKLWARGGP", "down_seq": "CDKRGEYKTIVKRITRDYEP", "mutagenesis": [ { "sequence_org": "S", "sequence_mut": "F", "comment": "Does not affect LAC1-LIP1 complex formation but abolishes enzymatic activity.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q03579-1.75.75", "categories": [ "mutagenesis_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03579-1.78.78", "categories": [ "mutagenesis_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03579-1.81.81", "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": "Q03579-1.75.75", "start_pos": 75, "end_pos": 75, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "C", "start_aa": "C", "up_seq": "PIKEPQSGSVIKLWARGGPS", "down_seq": "DKRGEYKTIVKRITRDYEPN", "mutagenesis": [ { "sequence_org": "C", "sequence_mut": "A", "comment": "About 90% loss in enzymatic activity of the LAC1-LIP1 complex.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q03579-1.74.74", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03579-1.78.78", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03579-1.81.81", "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": "Q03579-1.78.78", "start_pos": 78, "end_pos": 78, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "R", "start_aa": "R", "up_seq": "EPQSGSVIKLWARGGPSCDK", "down_seq": "GEYKTIVKRITRDYEPNDEH", "mutagenesis": [ { "sequence_org": "R", "sequence_mut": "A", "comment": "About 95% loss in enzymatic activity of the LAC1-LIP1 complex; when associated with A-81, A-125 and A-148.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q03579-1.74.74", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03579-1.75.75", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03579-1.81.81", "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": "Q03579-1.81.81", "start_pos": 81, "end_pos": 81, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Structure and mechanism of a eukaryotic ceramide synthase complex.", "journal": "The EMBO journal", "date": "2023-12-11", "authors": "Xie Tian, Fang Qi, Zhang Zike, Wang Yanfei, Dong Feitong, Gong Xin", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "reference": [ { "type": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "crossref": [ { "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "SGSVIKLWARGGPSCDKRGE", "down_seq": "KTIVKRITRDYEPNDEHLSF", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "A", "comment": "About 95% loss in enzymatic activity of the LAC1-LIP1 complex; when associated with A-78, A-125 and A-148.", "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" }, { "database": "PubMed", "id": "37953642", "url": "https://glygen.org/publication/PubMed/37953642" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q03579-1.74.74", "categories": [ "mutagenesis_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03579-1.75.75", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03579-1.78.78", "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": "Q03579-1.2.2", "start_pos": 2, "end_pos": 2, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "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": "Q03579", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03579" } ], "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": "Q03579", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03579" } ], "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": "Q03579", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03579" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03579", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03579" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03579", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03579", "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": "S000004913", "url": "https://www.yeastgenome.org/locus/S000004913", "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": "QPTPIITTKSAAKPKPKIFN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03579", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03579" }, { "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": "S000004913", "url": "https://www.yeastgenome.org/locus/S000004913" }, { "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": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q03579-1.5.5", "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": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03579-1.5.5", "start_pos": 5, "end_pos": 5, "uniprot_canonical_ac": "Q03579-1", "length": 150, "uniprot_id": "LIP1_YEAST", "protein_name": "Ceramide synthase subunit LIP1", "refseq_ac": "NP_014027", "refseq_name": "sphingosine N-acyltransferase subunit LIP1", "gene_name": "LIP1", "gene_names_uniprotkb": "LIP1", "gene_names_refseq": "LIP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03579", "url": "https://www.uniprot.org/uniprotkb/Q03579" } ], "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": "Q03579", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03579" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03579", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03579" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004913", "url": "https://www.yeastgenome.org/locus/S000004913", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03579", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03579", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "MSQP", "down_seq": "PIITTKSAAKPKPKIFNLFR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004913", "url": "https://www.yeastgenome.org/locus/S000004913" }, { "database": "iPTMnet", "id": "Q03579", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03579" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr5" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "125", "end_pos": "125" }, { "start_pos": "142", "end_pos": "142" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "37", "end_pos": "37" }, { "start_pos": "40", "end_pos": "40" }, { "start_pos": "41", "end_pos": "41" }, { "start_pos": "50", "end_pos": "51" }, { "start_pos": "51", "end_pos": "51" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "53", "end_pos": "53" }, { "start_pos": "74", "end_pos": "74" }, { "start_pos": "75", "end_pos": "75" }, { "start_pos": "78", "end_pos": "78" }, { "start_pos": "81", "end_pos": "81" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "2", "end_pos": "2" }, { "start_pos": "5", "end_pos": "5" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q03579-1.2.2", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03654-1.102.102", "start_pos": 102, "end_pos": 102, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Myb-related Schizosaccharomyces pombe cdc5p is structurally and functionally conserved in eukaryotes.", "journal": "Molecular and cellular biology", "date": "1998-07", "authors": "Ohi R, Feoktistova A, McCann S, Valentine V, Look A T, Lipsick J S, Gould K L", "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "reference": [ { "type": "PubMed", "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794" } ] } ], "crossref": [ { "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "NQWRTIADMMARPAQVCVER", "down_seq": "NRLLESEDSGGAALSTGVTD", "mutagenesis": [ { "sequence_org": "Y", "sequence_mut": "G", "comment": "No effect. Slower growth and thermosensitivity; when associated with G-52 or G-84. Complete loss of function; when associated with G-33; G-52 and G-84.", "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" }, { "database": "PubMed", "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03654-1.84.84", "categories": [ "mutagenesis_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03654-1.111.111", "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": "Q03654-1.33.33", "start_pos": 33, "end_pos": 33, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Myb-related Schizosaccharomyces pombe cdc5p is structurally and functionally conserved in eukaryotes.", "journal": "Molecular and cellular biology", "date": "1998-07", "authors": "Ohi R, Feoktistova A, McCann S, Valentine V, Look A T, Lipsick J S, Gould K L", "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "reference": [ { "type": "PubMed", "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794" } ] } ], "crossref": [ { "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "WTNVEDQILKAAVQKYGTHQ", "down_seq": "SKVASLLQKKTARQSELRWN", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "G", "comment": "No effect. Slower growth and thermosensitivity; when associated with G-84. Complete loss of function; when associated with G-52 and G-84. Complete loss of function; when associated with G-52; G-84 and G-102.", "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" }, { "database": "PubMed", "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "upstream", "id": "Q03654-1.52.52", "categories": [ "mutagenesis_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03654-1.52.52", "start_pos": 52, "end_pos": 52, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Myb-related Schizosaccharomyces pombe cdc5p is structurally and functionally conserved in eukaryotes.", "journal": "Molecular and cellular biology", "date": "1998-07", "authors": "Ohi R, Feoktistova A, McCann S, Valentine V, Look A T, Lipsick J S, Gould K L", "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "reference": [ { "type": "PubMed", "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794" } ] }, { "title": "Removal of a single alpha-tubulin gene intron suppresses cell cycle arrest phenotypes of splicing factor mutations in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "2002-02", "authors": "Burns C Geoffrey, Ohi Ryoma, Mehta Sapna, O'Toole Eileen T, Winey Mark, Clark Tyson A, Sugnet Charles W, Ares Manuel, Gould Kathleen L", "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "reference": [ { "type": "PubMed", "id": "11784857", "url": "https://glygen.org/publication/PubMed/11784857" } ] } ], "crossref": [ { "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794", "database": "PubMed", "categories": [ "Other" ] }, { "id": "11784857", "url": "https://glygen.org/publication/PubMed/11784857", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "QWSKVASLLQKKTARQSELR", "down_seq": "NEYLNPKLNFTEFSKEEDAQ", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "G", "comment": "No effect. Slower growth and thermosensitivity; when associated with G-84. Complete loss of function; when associated with G-33 and G-84. Complete loss of function; when associated with G-33; G-84 and G-102.", "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" }, { "database": "PubMed", "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794" }, { "database": "PubMed", "id": "11784857", "url": "https://glygen.org/publication/PubMed/11784857" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03654-1.33.33", "categories": [ "mutagenesis_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03654-1.55.55", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": true, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03654-1.84.84", "start_pos": 84, "end_pos": 84, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Myb-related Schizosaccharomyces pombe cdc5p is structurally and functionally conserved in eukaryotes.", "journal": "Molecular and cellular biology", "date": "1998-07", "authors": "Ohi R, Feoktistova A, McCann S, Valentine V, Look A T, Lipsick J S, Gould K L", "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "reference": [ { "type": "PubMed", "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794" } ] }, { "title": "Removal of a single alpha-tubulin gene intron suppresses cell cycle arrest phenotypes of splicing factor mutations in Saccharomyces cerevisiae.", "journal": "Molecular and cellular biology", "date": "2002-02", "authors": "Burns C Geoffrey, Ohi Ryoma, Mehta Sapna, O'Toole Eileen T, Winey Mark, Clark Tyson A, Sugnet Charles W, Ares Manuel, Gould Kathleen L", "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "reference": [ { "type": "PubMed", "id": "11784857", "url": "https://glygen.org/publication/PubMed/11784857" } ] } ], "crossref": [ { "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794", "database": "PubMed", "categories": [ "Other" ] }, { "id": "11784857", "url": "https://glygen.org/publication/PubMed/11784857", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "W", "start_aa": "W", "up_seq": "EFSKEEDAQLLDLARELPNQ", "down_seq": "RTIADMMARPAQVCVERYNR", "mutagenesis": [ { "sequence_org": "W", "sequence_mut": "G", "comment": "No effect. Slower growth and thermosensitivity; when associated with G-33 or G-52. Complete loss of function; when associated with G-33 and G-52 or G-52 and Y-102. Complete loss of function; when associated with G-33; G-52 and G-102.", "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" }, { "database": "PubMed", "id": "9632794", "url": "https://glygen.org/publication/PubMed/9632794" }, { "database": "PubMed", "id": "11784857", "url": "https://glygen.org/publication/PubMed/11784857" } ] } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "mutagenesis_flag" ], "glycosylation": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "upstream", "id": "Q03654-1.102.102", "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": "Q03654-1.111.111", "start_pos": 111, "end_pos": 111, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MARPAQVCVERYNRLLESED", "down_seq": "GGAALSTGVTDLKAGDINPN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826" }, { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser111" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q03654-1.102.102", "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": "Q03654-1.342.342", "start_pos": 342, "end_pos": 342, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "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": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "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": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "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": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "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": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826", "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": "LIEAQATGTVLTPKELLPHD", "down_seq": "GQEDNERSNIKSGKQLKSRI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826" }, { "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": "Ser342" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q03654-1.385.385", "start_pos": 385, "end_pos": 385, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654", "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": "FLVQMFASLPSPKNDFEIVL", "down_seq": "EDEKEEDAEIAEYEKEFENE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826" }, { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser385" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03654-1.419.419", "start_pos": 419, "end_pos": 419, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "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": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654", "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": "EKEFENERAMNEEDNFIEPP", "down_seq": "QNDAPRVSLVAVPLAYSTLP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826" }, { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser419" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03654-1.455.455", "start_pos": 455, "end_pos": 455, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "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": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "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": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] } ], "crossref": [ { "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654", "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": "Y", "start_aa": "Y", "up_seq": "YSTLPIPEFKNNPQSAIDNK", "down_seq": "NLLVANAINKEPHMVPEDTV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Tyr455" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03654-1.55.55", "start_pos": 55, "end_pos": 55, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654", "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": "KVASLLQKKTARQSELRWNE", "down_seq": "LNPKLNFTEFSKEEDAQLLD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826" }, { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr55" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q03654-1.52.52", "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": "Q03654-1.572.572", "start_pos": 572, "end_pos": 572, "uniprot_canonical_ac": "Q03654-1", "length": 590, "uniprot_id": "CEF1_YEAST", "protein_name": "Pre-mRNA-splicing factor CEF1", "refseq_ac": "NP_013940", "refseq_name": "Cef1p", "gene_name": "CEF1", "gene_names_uniprotkb": "CEF1; NTC85; YM8261.07", "gene_names_refseq": "CEF1; NTC85", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03654", "url": "https://www.uniprot.org/uniprotkb/Q03654" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LIEGQRKYYADYYAYRQEIR", "down_seq": "LEGRRKRLQAMLNSSSSI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004826", "url": "https://www.yeastgenome.org/locus/S000004826" }, { "database": "iPTMnet", "id": "Q03654", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03654" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser572" } ], "all_sites": [ { "type": "mutagenesis", "site_list": [ { "start_pos": "102", "end_pos": "102" }, { "start_pos": "33", "end_pos": "33" }, { "start_pos": "52", "end_pos": "52" }, { "start_pos": "84", "end_pos": "84" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "111", "end_pos": "111" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "385", "end_pos": "385" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "55", "end_pos": "55" }, { "start_pos": "572", "end_pos": "572" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.353.353", "start_pos": 353, "end_pos": 353, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "RSSDITANDSSDEKWAECQT", "down_seq": "MPCGSSSNSKSRSIEKDLSK", "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": "Ser353", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03656-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q03656-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03656-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q03656-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03656-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03656-1.358.358", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03656-1.359.359", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03656-1.360.360", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03656-1.362.362", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03656-1.366.366", "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": "Q03656-1.358.358", "start_pos": 358, "end_pos": 358, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "TANDSSDEKWAECQTSMPCG", "down_seq": "SSNSKSRSIEKDLSKRCFRR", "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": "Ser358", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser358" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03656-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03656-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03656-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03656-1.353.353", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.359.359", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03656-1.360.360", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.362.362", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03656-1.366.366", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.359.359", "start_pos": 359, "end_pos": 359, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ANDSSDEKWAECQTSMPCGS", "down_seq": "SNSKSRSIEKDLSKRCFRRP", "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": "Ser359", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03656-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03656-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03656-1.353.353", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.358.358", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.360.360", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.362.362", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03656-1.366.366", "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": "Q03656-1.360.360", "start_pos": 360, "end_pos": 360, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "NDSSDEKWAECQTSMPCGSS", "down_seq": "NSKSRSIEKDLSKRCFRRPR", "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": "Ser360", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser360" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03656-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q03656-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03656-1.353.353", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03656-1.358.358", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.359.359", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03656-1.362.362", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03656-1.366.366", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.362.362", "start_pos": 362, "end_pos": 362, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "SSDEKWAECQTSMPCGSSSN", "down_seq": "KSRSIEKDLSKRCFRRPRRH", "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": "Ser362", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "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": "Ser362" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03656-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "Q03656-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03656-1.353.353", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03656-1.358.358", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.359.359", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03656-1.360.360", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.366.366", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.426.426", "start_pos": 426, "end_pos": 426, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "HFCGSSHNSFSSVSGNRNIP", "down_seq": "SINNNSINNGIGIKNSNNSF", "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": "Ser426", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser426" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q03656-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03656-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03656-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03656-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03656-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.427.427", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03656-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03656-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03656-1.445.445", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.427.427", "start_pos": 427, "end_pos": 427, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "FCGSSHNSFSSVSGNRNIPS", "down_seq": "INNNSINNGIGIKNSNNSFL", "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": "Ser427", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "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": "Ser427" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03656-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03656-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03656-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03656-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03656-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.426.426", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03656-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03656-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03656-1.445.445", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.432.432", "start_pos": 432, "end_pos": 432, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656", "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "HNSFSSVSGNRNIPSSINNN", "down_seq": "INNGIGIKNSNNSFLNSVPH", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser432", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "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": "Ser432" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03656-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03656-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03656-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03656-1.426.426", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03656-1.427.427", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03656-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03656-1.449.449", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 6 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.449.449", "start_pos": 449, "end_pos": 449, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656", "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "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": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "NNNSINNGIGIKNSNNSFLN", "down_seq": "VPHSVTRMFINEDSNDNNNN", "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": "Ser449", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "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": "Ser449" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03656-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03656-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03656-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.453.453", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03656-1.455.455", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 12 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.453.453", "start_pos": 453, "end_pos": 453, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656", "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "INNGIGIKNSNNSFLNSVPH", "down_seq": "VTRMFINEDSNDNNNNDNSK", "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": "Ser453", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "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": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser453" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q03656-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03656-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03656-1.449.449", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03656-1.455.455", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 10 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.61.61", "start_pos": 61, "end_pos": 61, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "FFQRDYNMMKKAPAPTKSKL", "down_seq": "LALQTSKSSSSANGTVQEDT", "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": "Ser61", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser61" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q03656-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03656-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03656-1.67.67", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03656-1.69.69", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03656-1.70.70", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03656-1.72.72", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03656-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.67.67", "start_pos": 67, "end_pos": 67, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "NMMKKAPAPTKSKLSLALQT", "down_seq": "KSSSSANGTVQEDTSSKTED", "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": "Ser67", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser67" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q03656-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03656-1.61.61", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03656-1.69.69", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.70.70", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03656-1.72.72", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03656-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03656-1.82.82", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03656-1.83.83", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.69.69", "start_pos": 69, "end_pos": 69, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MKKAPAPTKSKLSLALQTSK", "down_seq": "SSSANGTVQEDTSSKTEDFS", "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": "Ser69", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q03656-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03656-1.61.61", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03656-1.67.67", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.70.70", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03656-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.72.72", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03656-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03656-1.82.82", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03656-1.83.83", "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": "Q03656-1.70.70", "start_pos": 70, "end_pos": 70, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKAPAPTKSKLSLALQTSKS", "down_seq": "SSANGTVQEDTSSKTEDFST", "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": "Ser70", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" } ], "site_lbl": "Ser70" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 12, "direction": "downstream", "id": "Q03656-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03656-1.61.61", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03656-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.67.67", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.69.69", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03656-1.72.72", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03656-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03656-1.82.82", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03656-1.83.83", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.71.71", "start_pos": 71, "end_pos": 71, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KAPAPTKSKLSLALQTSKSS", "down_seq": "SANGTVQEDTSSKTEDFSTK", "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": "Ser71", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03656-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03656-1.61.61", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03656-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03656-1.67.67", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03656-1.69.69", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.70.70", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.72.72", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03656-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03656-1.82.82", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03656-1.83.83", "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": "Q03656-1.72.72", "start_pos": 72, "end_pos": 72, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "APAPTKSKLSLALQTSKSSS", "down_seq": "ANGTVQEDTSSKTEDFSTKS", "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": "Ser72", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q03656-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q03656-1.61.61", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03656-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03656-1.67.67", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.69.69", "categories": [ "glycosylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03656-1.70.70", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.82.82", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03656-1.83.83", "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": "Q03656-1.82.82", "start_pos": 82, "end_pos": 82, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LALQTSKSSSSANGTVQEDT", "down_seq": "SKTEDFSTKSIKKKPDSGVE", "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": "Ser82", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q03656-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03656-1.67.67", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03656-1.69.69", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03656-1.70.70", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q03656-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03656-1.72.72", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03656-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.83.83", "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": "Q03656-1.83.83", "start_pos": 83, "end_pos": 83, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "ALQTSKSSSSANGTVQEDTS", "down_seq": "KTEDFSTKSIKKKPDSGVES", "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": "Ser83", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03656", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03656" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser83" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03656-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03656-1.67.67", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q03656-1.69.69", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03656-1.70.70", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03656-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q03656-1.72.72", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03656-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.82.82", "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": "Q03656-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" }, { "database": "O-GlcNAc Atlas", "id": "Q03656", "url": "https://oglcnac.org/atlas/detail/Q03656" } ], "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": "Q03656", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656", "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": "Q03656", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03656" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q03656-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03656-1.14.14", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": false, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.135.135", "start_pos": 135, "end_pos": 135, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "SDSDLDSDSSISSCDERNEE", "down_seq": "LKDYRPGGYHPAFKGEPYKD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser135" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.14.14", "start_pos": 14, "end_pos": 14, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "MGSSINYPGFVTK", "down_seq": "AHLADTSTDASISCEEATSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser14" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q03656-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 11, "direction": "downstream", "id": "Q03656-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03656-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03656-1.25.25", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03656-1.34.34", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.25.25", "start_pos": 25, "end_pos": 25, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "INYPGFVTKSAHLADTSTDA", "down_seq": "ISCEEATSSQEAKKNFFQRD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser25" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q03656-1.14.14", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03656-1.34.34", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.332.332", "start_pos": 332, "end_pos": 332, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QMVEALDKQKREAKRLQRHV", "down_seq": "RSSDITANDSSDEKWAECQT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser332" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q03656-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03656-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03656-1.343.343", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.334.334", "start_pos": 334, "end_pos": 334, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "VEALDKQKREAKRLQRHVSR", "down_seq": "SDITANDSSDEKWAECQTSM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser334" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q03656-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03656-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03656-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03656-1.353.353", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.335.335", "start_pos": 335, "end_pos": 335, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "EALDKQKREAKRLQRHVSRS", "down_seq": "DITANDSSDEKWAECQTSMP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "17287358", "url": "https://glygen.org/publication/PubMed/17287358" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser335" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q03656-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03656-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03656-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03656-1.353.353", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.338.338", "start_pos": 338, "end_pos": 338, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "DKQKREAKRLQRHVSRSSDI", "down_seq": "ANDSSDEKWAECQTSMPCGS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr338" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 6, "direction": "downstream", "id": "Q03656-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03656-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03656-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03656-1.353.353", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03656-1.358.358", "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": "Q03656-1.342.342", "start_pos": 342, "end_pos": 342, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "REAKRLQRHVSRSSDITAND", "down_seq": "SDEKWAECQTSMPCGSSSNS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser342" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q03656-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03656-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03656-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03656-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.343.343", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03656-1.353.353", "categories": [ "glycosylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03656-1.358.358", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03656-1.359.359", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03656-1.360.360", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03656-1.362.362", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.343.343", "start_pos": 343, "end_pos": 343, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "EAKRLQRHVSRSSDITANDS", "down_seq": "DEKWAECQTSMPCGSSSNSK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser343" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 11, "direction": "downstream", "id": "Q03656-1.332.332", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03656-1.334.334", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03656-1.335.335", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03656-1.338.338", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.342.342", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.353.353", "categories": [ "glycosylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03656-1.358.358", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03656-1.359.359", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03656-1.360.360", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03656-1.362.362", "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": "Q03656-1.34.34", "start_pos": 34, "end_pos": 34, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "SAHLADTSTDASISCEEATS", "down_seq": "QEAKKNFFQRDYNMMKKAPA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser34" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03656-1.14.14", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03656-1.25.25", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.366.366", "start_pos": 366, "end_pos": 366, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "KWAECQTSMPCGSSSNSKSR", "down_seq": "IEKDLSKRCFRRPRRHTIIT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "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": "Ser366" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03656-1.353.353", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03656-1.358.358", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03656-1.359.359", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03656-1.360.360", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03656-1.362.362", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03656-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03656-1.386.386", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.383.383", "start_pos": 383, "end_pos": 383, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656", "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KSRSIEKDLSKRCFRRPRRH", "down_seq": "IITGSQPLPSPISSSNFFEM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" } ], "site_lbl": "Thr383" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03656-1.366.366", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03656-1.388.388", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03656-1.396.396", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.386.386", "start_pos": 386, "end_pos": 386, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "SIEKDLSKRCFRRPRRHTII", "down_seq": "GSQPLPSPISSSNFFEMRAH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "Phosphothreonine", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr386" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03656-1.366.366", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03656-1.388.388", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03656-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.396.396", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.388.388", "start_pos": 388, "end_pos": 388, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "EKDLSKRCFRRPRRHTIITG", "down_seq": "QPLPSPISSSNFFEMRAHFC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser388" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q03656-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03656-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03656-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03656-1.396.396", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.393.393", "start_pos": 393, "end_pos": 393, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" } ] }, { "title": "A global protein kinase and phosphatase interaction network in yeast.", "journal": "Science (New York, N.Y.)", "date": "2010-05-21", "authors": "Breitkreutz Ashton, Choi Hyungwon, Sharom Jeffrey R, Boucher Lorrie, Neduva Victor, Larsen Brett, Lin Zhen-Yuan, Breitkreutz Bobby-Joe, Stark Chris, Liu Guomin, Ahn Jessica, Dewar-Darch Danielle, Reguly Teresa, Tang Xiaojing, Almeida Ricardo, Qin Zhaohui Steve, Pawson Tony, Gingras Anne-Claude, Nesvizhskii Alexey I, Tyers Mike", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656", "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "33481703", "url": "https://glygen.org/publication/PubMed/33481703", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KRCFRRPRRHTIITGSQPLP", "down_seq": "PISSSNFFEMRAHFCGSSHN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser393" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q03656-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03656-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03656-1.388.388", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03656-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03656-1.411.411", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.396.396", "start_pos": 396, "end_pos": 396, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "FRRPRRHTIITGSQPLPSPI", "down_seq": "SSNFFEMRAHFCGSSHNSFS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "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": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser396" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03656-1.383.383", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03656-1.386.386", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03656-1.388.388", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03656-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03656-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03656-1.414.414", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 4 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.3.3", "start_pos": 3, "end_pos": 3, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "MG", "down_seq": "SINYPGFVTKSAHLADTSTD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser3" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q03656-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.4.4", "categories": [ "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03656-1.14.14", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.410.410", "start_pos": 410, "end_pos": 410, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "PLPSPISSSNFFEMRAHFCG", "down_seq": "SHNSFSSVSGNRNIPSSINN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser410" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03656-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "downstream", "id": "Q03656-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03656-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03656-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03656-1.426.426", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03656-1.427.427", "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": "Q03656-1.411.411", "start_pos": 411, "end_pos": 411, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LPSPISSSNFFEMRAHFCGS", "down_seq": "HNSFSSVSGNRNIPSSINNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" } ], "site_lbl": "Ser411" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03656-1.393.393", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03656-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03656-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03656-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03656-1.426.426", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03656-1.427.427", "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": "Q03656-1.414.414", "start_pos": 414, "end_pos": 414, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "PISSSNFFEMRAHFCGSSHN", "down_seq": "FSSVSGNRNIPSSINNNSIN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "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": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser414" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03656-1.396.396", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03656-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03656-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03656-1.426.426", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03656-1.427.427", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03656-1.432.432", "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": "Q03656-1.417.417", "start_pos": 417, "end_pos": 417, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "SSNFFEMRAHFCGSSHNSFS", "down_seq": "VSGNRNIPSSINNNSINNGI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser417" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q03656-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03656-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03656-1.419.419", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03656-1.426.426", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.427.427", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03656-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.419.419", "start_pos": 419, "end_pos": 419, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NFFEMRAHFCGSSHNSFSSV", "down_seq": "GNRNIPSSINNNSINNGIGI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" } ], "site_lbl": "Ser419" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q03656-1.410.410", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03656-1.411.411", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03656-1.414.414", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03656-1.417.417", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03656-1.426.426", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03656-1.427.427", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03656-1.432.432", "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": "Q03656-1.442.442", "start_pos": 442, "end_pos": 442, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "RNIPSSINNNSINNGIGIKN", "down_seq": "NNSFLNSVPHSVTRMFINED", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser442" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q03656-1.426.426", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03656-1.427.427", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03656-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03656-1.449.449", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03656-1.453.453", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03656-1.455.455", "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": "Q03656-1.445.445", "start_pos": 445, "end_pos": 445, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656", "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "PSSINNNSINNGIGIKNSNN", "down_seq": "FLNSVPHSVTRMFINEDSND", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "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": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser445" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03656-1.426.426", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q03656-1.427.427", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03656-1.432.432", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.449.449", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03656-1.453.453", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.455.455", "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": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.455.455", "start_pos": 455, "end_pos": 455, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Characterization of the rapamycin-sensitive phosphoproteome reveals that Sch9 is a central coordinator of protein synthesis.", "journal": "Genes & development", "date": "2009-08-15", "authors": "Huber Alexandre, Bodenmiller Bernd, Uotila Aino, Stahl Michael, Wanka Stefanie, Gerrits Bertran, Aebersold Ruedi, Loewith Robbie", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "NGIGIKNSNNSFLNSVPHSV", "down_seq": "RMFINEDSNDNNNNDNSKNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr455" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03656-1.442.442", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03656-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03656-1.449.449", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03656-1.453.453", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.4.4", "start_pos": 4, "end_pos": 4, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "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": "MGS", "down_seq": "INYPGFVTKSAHLADTSTDA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "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": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "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": "Ser4" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q03656-1.0.0", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03656-1.3.3", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.14.14", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 5 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.503.503", "start_pos": 503, "end_pos": 503, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NNNNNEDIMNTPLHEEQLAD", "down_seq": "LSTFDISNISQSSDTNGPYI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser503" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.534.534", "start_pos": 534, "end_pos": 534, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QSSDTNGPYISNTMDSNSNV", "down_seq": "TDINSPENLIQIKIADLGNA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser534" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.557.557", "start_pos": 557, "end_pos": 557, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "Y", "start_aa": "Y", "up_seq": "INSPENLIQIKIADLGNACW", "down_seq": "DEHYTNSIQTREYRSPEVLL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr557" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "Q03656-1.561.561", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03656-1.564.564", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.561.561", "start_pos": 561, "end_pos": 561, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "ENLIQIKIADLGNACWYDEH", "down_seq": "TNSIQTREYRSPEVLLGAPW", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Tyr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Tyr561" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q03656-1.557.557", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.564.564", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.564.564", "start_pos": 564, "end_pos": 564, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "IQIKIADLGNACWYDEHYTN", "down_seq": "IQTREYRSPEVLLGAPWGCG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser564" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q03656-1.557.557", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03656-1.561.561", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.58.58", "start_pos": 58, "end_pos": 58, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "KKNFFQRDYNMMKKAPAPTK", "down_seq": "KLSLALQTSKSSSSANGTVQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser58" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q03656-1.61.61", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03656-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03656-1.67.67", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 11, "direction": "upstream", "id": "Q03656-1.69.69", "categories": [ "glycosylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03656-1.70.70", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03656-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03656-1.72.72", "categories": [ "glycosylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03656-1.76.76", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.642.642", "start_pos": 642, "end_pos": 642, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "IIELLGELPSYLLRNGKYTR", "down_seq": "FFNSRGLLRNISKLKFWPLE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" } ], "site_lbl": "Thr642" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "upstream", "id": "Q03656-1.646.646", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.646.646", "start_pos": 646, "end_pos": 646, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LGELPSYLLRNGKYTRTFFN", "down_seq": "RGLLRNISKLKFWPLEDVLT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" } ], "site_lbl": "Ser646" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q03656-1.642.642", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "YNMMKKAPAPTKSKLSLALQ", "down_seq": "SKSSSSANGTVQEDTSSKTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Thr66" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q03656-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03656-1.61.61", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03656-1.67.67", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03656-1.69.69", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03656-1.70.70", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03656-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03656-1.72.72", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03656-1.76.76", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03656-1.82.82", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03656-1.83.83", "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": "Q03656-1.725.725", "start_pos": 725, "end_pos": 725, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "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": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" } ] } ], "crossref": [ { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "WLKDTLGMEEIRVPDRELYG", "down_seq": "GSDIPGWFEEVRDHKRH", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "20489023", "url": "https://glygen.org/publication/PubMed/20489023" }, { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" } ], "site_lbl": "Ser725" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03656-1.76.76", "start_pos": 76, "end_pos": 76, "uniprot_canonical_ac": "Q03656-1", "length": 742, "uniprot_id": "SKY1_YEAST", "protein_name": "Serine/threonine-protein kinase SKY1", "refseq_ac": "NP_013943", "refseq_name": "serine/threonine protein kinase SKY1", "gene_name": "SKY1", "gene_names_uniprotkb": "SKY1; YM8261.10C", "gene_names_refseq": "SKY1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03656", "url": "https://www.uniprot.org/uniprotkb/Q03656" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656", "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": "TKSKLSLALQTSKSSSSANG", "down_seq": "VQEDTSSKTEDFSTKSIKKK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004829", "url": "https://www.yeastgenome.org/locus/S000004829" }, { "database": "iPTMnet", "id": "Q03656", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03656" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr76" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "353", "end_pos": "353" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "359", "end_pos": "359" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "69", "end_pos": "69" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "71", "end_pos": "71" }, { "start_pos": "72", "end_pos": "72" }, { "start_pos": "82", "end_pos": "82" }, { "start_pos": "83", "end_pos": "83" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "135", "end_pos": "135" }, { "start_pos": "14", "end_pos": "14" }, { "start_pos": "25", "end_pos": "25" }, { "start_pos": "332", "end_pos": "332" }, { "start_pos": "334", "end_pos": "334" }, { "start_pos": "335", "end_pos": "335" }, { "start_pos": "338", "end_pos": "338" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "343", "end_pos": "343" }, { "start_pos": "34", "end_pos": "34" }, { "start_pos": "358", "end_pos": "358" }, { "start_pos": "360", "end_pos": "360" }, { "start_pos": "362", "end_pos": "362" }, { "start_pos": "366", "end_pos": "366" }, { "start_pos": "383", "end_pos": "383" }, { "start_pos": "386", "end_pos": "386" }, { "start_pos": "388", "end_pos": "388" }, { "start_pos": "393", "end_pos": "393" }, { "start_pos": "396", "end_pos": "396" }, { "start_pos": "3", "end_pos": "3" }, { "start_pos": "410", "end_pos": "410" }, { "start_pos": "411", "end_pos": "411" }, { "start_pos": "414", "end_pos": "414" }, { "start_pos": "417", "end_pos": "417" }, { "start_pos": "419", "end_pos": "419" }, { "start_pos": "426", "end_pos": "426" }, { "start_pos": "427", "end_pos": "427" }, { "start_pos": "432", "end_pos": "432" }, { "start_pos": "442", "end_pos": "442" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "453", "end_pos": "453" }, { "start_pos": "455", "end_pos": "455" }, { "start_pos": "4", "end_pos": "4" }, { "start_pos": "503", "end_pos": "503" }, { "start_pos": "534", "end_pos": "534" }, { "start_pos": "557", "end_pos": "557" }, { "start_pos": "561", "end_pos": "561" }, { "start_pos": "564", "end_pos": "564" }, { "start_pos": "58", "end_pos": "58" }, { "start_pos": "61", "end_pos": "61" }, { "start_pos": "642", "end_pos": "642" }, { "start_pos": "646", "end_pos": "646" }, { "start_pos": "66", "end_pos": "66" }, { "start_pos": "67", "end_pos": "67" }, { "start_pos": "70", "end_pos": "70" }, { "start_pos": "725", "end_pos": "725" }, { "start_pos": "76", "end_pos": "76" }, { "start_pos": "83", "end_pos": "83" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 18, "direction": "downstream", "id": "Q03656-1.58.58", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03656-1.61.61", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03656-1.66.66", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03656-1.67.67", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03656-1.69.69", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03656-1.70.70", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03656-1.71.71", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03656-1.72.72", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03656-1.82.82", "categories": [ "glycosylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03656-1.83.83", "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": "Q03660-1.415.415", "start_pos": 415, "end_pos": 415, "uniprot_canonical_ac": "Q03660-1", "length": 1102, "uniprot_id": "TR130_YEAST", "protein_name": "Trafficking protein particle complex II-specific subunit 130", "refseq_ac": "NP_013945", "refseq_name": "transport protein particle complex II subunit TRS130", "gene_name": "TRS130", "gene_names_uniprotkb": "TRS130; YM8261.12C", "gene_names_refseq": "TRS130", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03660", "url": "https://www.uniprot.org/uniprotkb/Q03660" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03660", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03660" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004831", "url": "https://www.yeastgenome.org/locus/S000004831", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03660", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03660", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TFVDETVFQENFLTLTKEIL", "down_seq": "LFNKCEGKRQRIVDILSIEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004831", "url": "https://www.yeastgenome.org/locus/S000004831" }, { "database": "iPTMnet", "id": "Q03660", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser415" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "415", "end_pos": "415" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03694-1.112.112", "start_pos": 112, "end_pos": 112, "uniprot_canonical_ac": "Q03694-1", "length": 420, "uniprot_id": "INP1_YEAST", "protein_name": "Inheritance of peroxisomes protein 1", "refseq_ac": "NP_013931", "refseq_name": "Inp1p", "gene_name": "INP1", "gene_names_uniprotkb": "INP1; YM8325.05C", "gene_names_refseq": "INP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" }, { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "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": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "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": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817", "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": "MNSFVPIHNDIPNSSCIRRN", "down_seq": "QVSANNVTESSGVFFNDTQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser112" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q03694-1.115.115", "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": "Q03694-1.115.115", "start_pos": 115, "end_pos": 115, "uniprot_canonical_ac": "Q03694-1", "length": 420, "uniprot_id": "INP1_YEAST", "protein_name": "Inheritance of peroxisomes protein 1", "refseq_ac": "NP_013931", "refseq_name": "Inp1p", "gene_name": "INP1", "gene_names_uniprotkb": "INP1; YM8325.05C", "gene_names_refseq": "INP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" }, { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FVPIHNDIPNSSCIRRNSQV", "down_seq": "ANNVTESSGVFFNDTQSQDS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817" } ], "site_lbl": "Ser115" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q03694-1.112.112", "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": "Q03694-1.273.273", "start_pos": 273, "end_pos": 273, "uniprot_canonical_ac": "Q03694-1", "length": 420, "uniprot_id": "INP1_YEAST", "protein_name": "Inheritance of peroxisomes protein 1", "refseq_ac": "NP_013931", "refseq_name": "Inp1p", "gene_name": "INP1", "gene_names_uniprotkb": "INP1; YM8325.05C", "gene_names_refseq": "INP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" } ], "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": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" }, { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" } ] }, { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science", "date": "2009", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" }, { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "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": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817", "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": "ISKICQFSHINEGATIGNNE", "down_seq": "LSDKFKLPPTSDIEPPNTEI", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser273" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03694-1.392.392", "start_pos": 392, "end_pos": 392, "uniprot_canonical_ac": "Q03694-1", "length": 420, "uniprot_id": "INP1_YEAST", "protein_name": "Inheritance of peroxisomes protein 1", "refseq_ac": "NP_013931", "refseq_name": "Inp1p", "gene_name": "INP1", "gene_names_uniprotkb": "INP1; YM8325.05C", "gene_names_refseq": "INP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694", "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": "LNIPIAAPSIHSKQQNKRYS", "down_seq": "YPFIDSPPYLQDRHRRFQRR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817" }, { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser392" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03694-1.413.413", "start_pos": 413, "end_pos": 413, "uniprot_canonical_ac": "Q03694-1", "length": 420, "uniprot_id": "INP1_YEAST", "protein_name": "Inheritance of peroxisomes protein 1", "refseq_ac": "NP_013931", "refseq_name": "Inp1p", "gene_name": "INP1", "gene_names_uniprotkb": "INP1; YM8325.05C", "gene_names_refseq": "INP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" } ], "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": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694", "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": "YPFIDSPPYLQDRHRRFQRR", "down_seq": "ISGLGDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817" }, { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "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": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "upstream", "id": "Q03694-1.415.415", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03694-1.415.415", "start_pos": 415, "end_pos": 415, "uniprot_canonical_ac": "Q03694-1", "length": 420, "uniprot_id": "INP1_YEAST", "protein_name": "Inheritance of peroxisomes protein 1", "refseq_ac": "NP_013931", "refseq_name": "Inp1p", "gene_name": "INP1", "gene_names_uniprotkb": "INP1; YM8325.05C", "gene_names_refseq": "INP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" } ], "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": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817", "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": "FIDSPPYLQDRHRRFQRRSI", "down_seq": "GLGDL", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "SGD", "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser415" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q03694-1.413.413", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03694-1.77.77", "start_pos": 77, "end_pos": 77, "uniprot_canonical_ac": "Q03694-1", "length": 420, "uniprot_id": "INP1_YEAST", "protein_name": "Inheritance of peroxisomes protein 1", "refseq_ac": "NP_013931", "refseq_name": "Inp1p", "gene_name": "INP1", "gene_names_uniprotkb": "INP1; YM8325.05C", "gene_names_refseq": "INP1", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03694", "url": "https://www.uniprot.org/uniprotkb/Q03694" } ], "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": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694", "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": "VKAKKNGTSSKKTGTQRKRI", "down_seq": "TQRFSLFTYGNVQVMNSFVP", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004817", "url": "https://www.yeastgenome.org/locus/S000004817" }, { "database": "iPTMnet", "id": "Q03694", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03694" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser77" } ], "all_sites": [ { "type": "phosphorylation", "site_list": [ { "start_pos": "112", "end_pos": "112" }, { "start_pos": "115", "end_pos": "115" }, { "start_pos": "273", "end_pos": "273" }, { "start_pos": "392", "end_pos": "392" }, { "start_pos": "413", "end_pos": "413" }, { "start_pos": "415", "end_pos": "415" }, { "start_pos": "77", "end_pos": "77" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.631.631", "start_pos": 631, "end_pos": 631, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03735" }, { "database": "O-GlcNAc Atlas", "id": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735" } ], "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": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SPVSPNLQMNQRVLPNPITQ", "down_seq": "LEQNFNVSAKVASSMGSDIG", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser631", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03735", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03735" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03735-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "downstream", "id": "Q03735-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03735-1.639.639", "categories": [ "glycosylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03735-1.644.644", "categories": [ "glycosylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03735-1.645.645", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03735-1.648.648", "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": "Q03735-1.639.639", "start_pos": 639, "end_pos": 639, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03735" }, { "database": "O-GlcNAc Atlas", "id": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735" } ], "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": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MNQRVLPNPITQSLEQNFNV", "down_seq": "AKVASSMGSDIGNRTIYIGN", "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": "Ser639", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03735", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03735" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q03735-1.631.631", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03735-1.644.644", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03735-1.645.645", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03735-1.648.648", "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": "Q03735-1.644.644", "start_pos": 644, "end_pos": 644, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03735" }, { "database": "O-GlcNAc Atlas", "id": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735" } ], "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": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "LPNPITQSLEQNFNVSAKVA", "down_seq": "SMGSDIGNRTIYIGNINPRS", "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": "Ser644", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03735", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03735" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03735-1.631.631", "categories": [ "glycosylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03735-1.639.639", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03735-1.645.645", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03735-1.648.648", "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": "Q03735-1.645.645", "start_pos": 645, "end_pos": 645, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03735" }, { "database": "O-GlcNAc Atlas", "id": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735" } ], "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": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "PNPITQSLEQNFNVSAKVAS", "down_seq": "MGSDIGNRTIYIGNINPRSK", "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": "Ser645", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03735", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03735" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q03735-1.631.631", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03735-1.639.639", "categories": [ "glycosylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03735-1.644.644", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03735-1.648.648", "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": "Q03735-1.648.648", "start_pos": 648, "end_pos": 648, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03735" }, { "database": "O-GlcNAc Atlas", "id": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735" } ], "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": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ITQSLEQNFNVSAKVASSMG", "down_seq": "DIGNRTIYIGNINPRSKAED", "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": "Ser648", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03735", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03735" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03735-1.631.631", "categories": [ "glycosylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03735-1.639.639", "categories": [ "glycosylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03735-1.644.644", "categories": [ "glycosylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03735-1.645.645", "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": "Q03735-1.66.66", "start_pos": 66, "end_pos": 66, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "YGPSQHPAYYTNSPLPNIPP", "down_seq": "PFDTAYGASLFPSHLLMGSP", "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": "Thr66", "evidence": [ { "id": "GLY_001160", "database": "GlyGen", "url": "https://data.glygen.org/GLY_001160" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "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": "Q03735-1.0.0", "start_pos": 0, "end_pos": 0, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03735" }, { "database": "O-GlcNAc Atlas", "id": "Q03735", "url": "https://oglcnac.org/atlas/detail/Q03735" } ], "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": "Q03735", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03735", "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": "Q03735", "database": "O-GlcNAc Database", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03735" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "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": "Q03735-1.1001.1001", "start_pos": 1001, "end_pos": 1001, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "IFNKSSGSSDSSSDVEVIMH", "down_seq": "PSDPEYALKSQTLRSSSQTV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "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": "Ser1001" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q03735-1.991.991", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03735-1.992.992", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03735-1.993.993", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03735-1.1016.1016", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03735-1.1018.1018", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.1016.1016", "start_pos": 1016, "end_pos": 1016, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ] } ], "crossref": [ { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "EVIMHSPSDPEYALKSQTLR", "down_seq": "SSQTVINSKRPVKIEDEEEA", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" } ], "site_lbl": "Ser1016" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q03735-1.1001.1001", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03735-1.1018.1018", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03735-1.1024.1024", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.1018.1018", "start_pos": 1018, "end_pos": 1018, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "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": "IMHSPSDPEYALKSQTLRSS", "down_seq": "QTVINSKRPVKIEDEEEAVG", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "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": "Ser1018" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03735-1.1001.1001", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03735-1.1016.1016", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03735-1.1024.1024", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q03735-1.1024.1024", "start_pos": 1024, "end_pos": 1024, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "DPEYALKSQTLRSSSQTVIN", "down_seq": "KRPVKIEDEEEAVGMSQLNY", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1024" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 8, "direction": "downstream", "id": "Q03735-1.1016.1016", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03735-1.1018.1018", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.1057.1057", "start_pos": 1057, "end_pos": 1057, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "VGMSQLNYRSSLRQAPPRAP", "down_seq": "TLSYNHSKNNETPMQDIFTN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1057" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q03735-1.1060.1060", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03735-1.1064.1064", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.1060.1060", "start_pos": 1060, "end_pos": 1060, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "SQLNYRSSLRQAPPRAPSTL", "down_seq": "YNHSKNNETPMQDIFTNGET", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1060" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q03735-1.1057.1057", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03735-1.1064.1064", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.1064.1064", "start_pos": 1064, "end_pos": 1064, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "YRSSLRQAPPRAPSTLSYNH", "down_seq": "KNNETPMQDIFTNGETANNR", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser1064" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 7, "direction": "downstream", "id": "Q03735-1.1057.1057", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03735-1.1060.1060", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.1090.1090", "start_pos": 1090, "end_pos": 1090, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "PMQDIFTNGETANNRKKKRG", "down_seq": "FARHRTIPGSDVMAQYLAQV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ], "site_lbl": "Ser1090" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.1125.1125", "start_pos": 1125, "end_pos": 1125, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "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": "QYLAQVQHSTFMYAANILGA", "down_seq": "AEDNTHPDE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser1125" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.148.148", "start_pos": 148, "end_pos": 148, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "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": "QNNTNNGMVTPSNYYRMGRN", "down_seq": "FSRNNNSTRNVTHNNNKGCD", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser148" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.254.254", "start_pos": 254, "end_pos": 254, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "FVKSNTLESAYLIEGGKSDD", "down_seq": "KDVETKNLSILISFLTKGDC", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser254" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "upstream", "id": "Q03735-1.267.267", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03735-1.270.270", "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": "Q03735-1.267.267", "start_pos": 267, "end_pos": 267, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "EGGKSDDSKDVETKNLSILI", "down_seq": "FLTKGDCLNFYNNILQRLSE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Ser267" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03735-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03735-1.270.270", "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": "Q03735-1.270.270", "start_pos": 270, "end_pos": 270, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "T", "start_aa": "T", "up_seq": "KSDDSKDVETKNLSILISFL", "down_seq": "KGDCLNFYNNILQRLSEFKT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "24909858", "url": "https://glygen.org/publication/PubMed/24909858" } ], "site_lbl": "Thr270" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 16, "direction": "downstream", "id": "Q03735-1.254.254", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03735-1.267.267", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.444.444", "start_pos": 444, "end_pos": 444, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "YSKNLGISKCFYVSLAPLVV", "down_seq": "SARSSVANIYEGKTSTHRLS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser444" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q03735-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03735-1.448.448", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03735-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 14, "direction": "upstream", "id": "Q03735-1.458.458", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03735-1.464.464", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.445.445", "start_pos": 445, "end_pos": 445, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "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": "SKNLGISKCFYVSLAPLVVS", "down_seq": "ARSSVANIYEGKTSTHRLSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "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": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser445" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q03735-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03735-1.448.448", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03735-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03735-1.458.458", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03735-1.464.464", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.448.448", "start_pos": 448, "end_pos": 448, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "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": "LGISKCFYVSLAPLVVSSAR", "down_seq": "SVANIYEGKTSTHRLSVPSV", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21126336", "url": "https://glygen.org/publication/PubMed/21126336" }, { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "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": "Ser448" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q03735-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03735-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03735-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03735-1.458.458", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "upstream", "id": "Q03735-1.464.464", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03735-1.467.467", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 7 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.449.449", "start_pos": 449, "end_pos": 449, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "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": "GISKCFYVSLAPLVVSSARS", "down_seq": "VANIYEGKTSTHRLSVPSVT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "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": "Ser449" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q03735-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03735-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03735-1.448.448", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03735-1.458.458", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03735-1.464.464", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03735-1.467.467", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.458.458", "start_pos": 458, "end_pos": 458, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "LAPLVVSSARSSVANIYEGK", "down_seq": "STHRLSVPSVTAGNNNDSNN", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Thr458" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 14, "direction": "downstream", "id": "Q03735-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "downstream", "id": "Q03735-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "downstream", "id": "Q03735-1.448.448", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03735-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03735-1.464.464", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03735-1.467.467", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.464.464", "start_pos": 464, "end_pos": 464, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "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": "SSARSSVANIYEGKTSTHRL", "down_seq": "VPSVTAGNNNDSNNNGNNNK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "17330950", "url": "https://glygen.org/publication/PubMed/17330950" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "21177495", "url": "https://glygen.org/publication/PubMed/21177495" }, { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "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": "Ser464" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03735-1.444.444", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "Q03735-1.445.445", "categories": [ "phosphorylation_flag" ] }, { "distance": 16, "direction": "downstream", "id": "Q03735-1.448.448", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "downstream", "id": "Q03735-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 6, "direction": "downstream", "id": "Q03735-1.458.458", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03735-1.467.467", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.467.467", "start_pos": 467, "end_pos": 467, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "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": "RSSVANIYEGKTSTHRLSVP", "down_seq": "VTAGNNNDSNNNGNNNKSNM", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser467" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03735-1.448.448", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q03735-1.449.449", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "downstream", "id": "Q03735-1.458.458", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03735-1.464.464", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.497.497", "start_pos": 497, "end_pos": 497, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "NNNGNNNKSNMSGITTLNNN", "down_seq": "SIGVSVYGHSNMSLTSLSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ], "site_lbl": "Ser497" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "upstream", "id": "Q03735-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 13, "direction": "upstream", "id": "Q03735-1.510.510", "categories": [ "phosphorylation_flag" ] }, { "distance": 15, "direction": "upstream", "id": "Q03735-1.512.512", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.507.507", "start_pos": 507, "end_pos": 507, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MSGITTLNNNSSIGVSVYGH", "down_seq": "NMSLTSLSSSVSLNEEIDML", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser507" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 10, "direction": "downstream", "id": "Q03735-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03735-1.510.510", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03735-1.512.512", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.510.510", "start_pos": 510, "end_pos": 510, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ITTLNNNSSIGVSVYGHSNM", "down_seq": "LTSLSSSVSLNEEIDMLATK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser510" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 13, "direction": "downstream", "id": "Q03735-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03735-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03735-1.512.512", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.512.512", "start_pos": 512, "end_pos": 512, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "TLNNNSSIGVSVYGHSNMSL", "down_seq": "SLSSSVSLNEEIDMLATKLQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr512" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 15, "direction": "downstream", "id": "Q03735-1.497.497", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03735-1.507.507", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03735-1.510.510", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.550.550", "start_pos": 550, "end_pos": 550, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "KLQGVELDGTYLEINYRDYQ", "down_seq": "PTIEEHSTHLSNVKISKTTE", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr550" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.576.576", "start_pos": 576, "end_pos": 576, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "HSTHLSNVKISKTTENSRQF", "down_seq": "QDIPSPLPLNEHMFMNDSNQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser576" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.611.611", "start_pos": 611, "end_pos": 611, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "MNDSNQSNGAIIPQQLIATP", "down_seq": "PVSPNLQMNQRVLPNPITQS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser611" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "upstream", "id": "Q03735-1.614.614", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03735-1.631.631", "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": "Q03735-1.614.614", "start_pos": 614, "end_pos": 614, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "A multidimensional chromatography technology for in-depth phosphoproteome analysis.", "journal": "Molecular & cellular proteomics : MCP", "date": "2008-07", "authors": "Albuquerque Claudio P, Smolka Marcus B, Payne Samuel H, Bafna Vineet, Eng Jimmy, Zhou Huilin", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "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": "SNQSNGAIIPQQLIATPSPV", "down_seq": "PNLQMNQRVLPNPITQSLEQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser614" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 3, "direction": "downstream", "id": "Q03735-1.611.611", "categories": [ "phosphorylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03735-1.631.631", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.881.881", "start_pos": 881, "end_pos": 881, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "INKNLIAGKNSRFYKKVKRP", "down_seq": "YNIRLSKLEEKRRQNEIDEK", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser881" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.972.972", "start_pos": 972, "end_pos": 972, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "ETGSFGGLGLAVASSDVKRA", "down_seq": "SDETDYEDIFNKSSGSSDSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Thr972" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q03735-1.973.973", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03735-1.991.991", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03735-1.992.992", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.973.973", "start_pos": 973, "end_pos": 973, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "TGSFGGLGLAVASSDVKRAT", "down_seq": "DETDYEDIFNKSSGSSDSSS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser973" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q03735-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03735-1.991.991", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03735-1.992.992", "categories": [ "phosphorylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03735-1.993.993", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.991.991", "start_pos": 991, "end_pos": 991, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution.", "journal": "Science (New York, N.Y.)", "date": "2009-09-25", "authors": "Holt Liam J, Tuch Brian B, Vill\u00e9n Judit, Johnson Alexander D, Gygi Steven P, Morgan David O", "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" } ] } ], "crossref": [ { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "ATSDETDYEDIFNKSSGSSD", "down_seq": "SSDVEVIMHSPSDPEYALKS", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" } ], "site_lbl": "Ser991" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 19, "direction": "downstream", "id": "Q03735-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 18, "direction": "downstream", "id": "Q03735-1.973.973", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03735-1.992.992", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03735-1.993.993", "categories": [ "phosphorylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03735-1.1001.1001", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.992.992", "start_pos": 992, "end_pos": 992, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "common_name": "Baker's yeast", "glygen_name": "Yeast", "reference_species": "Saccharomyces cerevisiae S288C [559292]" } ], "publication": [ { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "TSDETDYEDIFNKSSGSSDS", "down_seq": "SDVEVIMHSPSDPEYALKSQ", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser992" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03735-1.972.972", "categories": [ "phosphorylation_flag" ] }, { "distance": 19, "direction": "downstream", "id": "Q03735-1.973.973", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03735-1.991.991", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03735-1.993.993", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03735-1.1001.1001", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03735-1.993.993", "start_pos": 993, "end_pos": 993, "uniprot_canonical_ac": "Q03735-1", "length": 1134, "uniprot_id": "NAB6_YEAST", "protein_name": "RNA-binding protein NAB6", "refseq_ac": "NP_013589", "refseq_name": "Nab6p", "gene_name": "NAB6", "gene_names_uniprotkb": "NAB6; YM8339.02", "gene_names_refseq": "NAB6", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "https://www.uniprot.org/uniprotkb/Q03735" }, { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "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": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "30516470", "url": "https://glygen.org/publication/PubMed/30516470" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" } ], "reference": [ { "type": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ] } ], "crossref": [ { "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735", "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": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585", "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "SDETDYEDIFNKSSGSSDSS", "down_seq": "DVEVIMHSPSDPEYALKSQT", "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03735", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03735" }, { "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": "S000004585", "url": "https://www.yeastgenome.org/locus/S000004585" }, { "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": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser993" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "631", "end_pos": "631" }, { "start_pos": "639", "end_pos": "639" }, { "start_pos": "644", "end_pos": "644" }, { "start_pos": "645", "end_pos": "645" }, { "start_pos": "648", "end_pos": "648" }, { "start_pos": "66", "end_pos": "66" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "1001", "end_pos": "1001" }, { "start_pos": "1016", "end_pos": "1016" }, { "start_pos": "1018", "end_pos": "1018" }, { "start_pos": "1024", "end_pos": "1024" }, { "start_pos": "1057", "end_pos": "1057" }, { "start_pos": "1060", "end_pos": "1060" }, { "start_pos": "1064", "end_pos": "1064" }, { "start_pos": "1090", "end_pos": "1090" }, { "start_pos": "1125", "end_pos": "1125" }, { "start_pos": "148", "end_pos": "148" }, { "start_pos": "254", "end_pos": "254" }, { "start_pos": "267", "end_pos": "267" }, { "start_pos": "270", "end_pos": "270" }, { "start_pos": "444", "end_pos": "444" }, { "start_pos": "445", "end_pos": "445" }, { "start_pos": "448", "end_pos": "448" }, { "start_pos": "449", "end_pos": "449" }, { "start_pos": "458", "end_pos": "458" }, { "start_pos": "464", "end_pos": "464" }, { "start_pos": "467", "end_pos": "467" }, { "start_pos": "497", "end_pos": "497" }, { "start_pos": "507", "end_pos": "507" }, { "start_pos": "510", "end_pos": "510" }, { "start_pos": "512", "end_pos": "512" }, { "start_pos": "550", "end_pos": "550" }, { "start_pos": "576", "end_pos": "576" }, { "start_pos": "611", "end_pos": "611" }, { "start_pos": "614", "end_pos": "614" }, { "start_pos": "881", "end_pos": "881" }, { "start_pos": "972", "end_pos": "972" }, { "start_pos": "973", "end_pos": "973" }, { "start_pos": "991", "end_pos": "991" }, { "start_pos": "992", "end_pos": "992" }, { "start_pos": "993", "end_pos": "993" } ] } ], "categories": [ "phosphorylation_flag" ], "glycosylation": [], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 20, "direction": "downstream", "id": "Q03735-1.973.973", "categories": [ "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03735-1.991.991", "categories": [ "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03735-1.992.992", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03735-1.1001.1001", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": false, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 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": "Q03761-1.286.286", "start_pos": 286, "end_pos": 286, "uniprot_canonical_ac": "Q03761-1", "length": 539, "uniprot_id": "TAF12_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF12", "refseq_ac": "NP_010429", "refseq_name": "Taf12p", "gene_name": "TAF12", "gene_names_uniprotkb": "TAF12; TAF61; TAF68; YD8358.02", "gene_names_refseq": "TAF12; TAF61; TAF68", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" } ], "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": "Q03761", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03761" }, { "database": "O-GlcNAc Atlas", "id": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae.", "journal": "Journal of proteome research", "date": "2007-03", "authors": "Li Xue, Gerber Scott A, Rudner Adam D, Beausoleil Sean A, Haas Wilhelm, Vill\u00e9n Judit, Elias Joshua E, Gygi Steve P", "evidence": [ { "database": "UniProtKB", "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" }, { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" }, { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" } ] }, { "title": "Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases.", "journal": "Proceedings of the National Academy of Sciences of the United States of America", "date": "2007-06-19", "authors": "Smolka Marcus B, Albuquerque Claudio P, Chen Sheng-hong, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" }, { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "In-depth profiling of post-translational modifications on the related transcription factor complexes TFIID and SAGA.", "journal": "Journal of proteome research", "date": "2009-11", "authors": "Mischerikow Nikolai, Spedale Gianpiero, Altelaar A F Maarten, Timmers H Th Marc, Pijnappel W W M Pim, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761", "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377", "database": "PubMed", "categories": [ "Other" ] }, { "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356", "database": "PubMed", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963", "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": "QQQQQQQQQQQRQGQNQRKI", "down_seq": "SSNSTEIPSVTGPDALKSQQ", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser286", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03761", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03761" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "Phosphoserine", "evidence": [ { "database": "UniProtKB", "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" }, { "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" }, { "database": "PubMed", "id": "15665377", "url": "https://glygen.org/publication/PubMed/15665377" }, { "database": "PubMed", "id": "17563356", "url": "https://glygen.org/publication/PubMed/17563356" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" }, { "database": "SGD", "id": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552" }, { "database": "PubMed", "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" }, { "database": "PubMed", "id": "32597660", "url": "https://glygen.org/publication/PubMed/32597660" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" }, { "database": "PubMed", "id": "33491328", "url": "https://glygen.org/publication/PubMed/33491328" } ], "site_lbl": "Ser286" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "369", "end_pos": "369" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "534", "end_pos": "534" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "upstream", "id": "Q03761-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03761-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03761-1.290.290", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03761-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 9, "direction": "upstream", "id": "Q03761-1.295.295", "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": 14 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03761-1.287.287", "start_pos": 287, "end_pos": 287, "uniprot_canonical_ac": "Q03761-1", "length": 539, "uniprot_id": "TAF12_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF12", "refseq_ac": "NP_010429", "refseq_name": "Taf12p", "gene_name": "TAF12", "gene_names_uniprotkb": "TAF12; TAF61; TAF68; YD8358.02", "gene_names_refseq": "TAF12; TAF61; TAF68", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" } ], "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": "Q03761", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03761" }, { "database": "O-GlcNAc Atlas", "id": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761" } ], "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": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" }, { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" }, { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "In-depth profiling of post-translational modifications on the related transcription factor complexes TFIID and SAGA.", "journal": "Journal of proteome research", "date": "2009-11", "authors": "Mischerikow Nikolai, Spedale Gianpiero, Altelaar A F Maarten, Timmers H Th Marc, Pijnappel W W M Pim, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ] }, { "title": "In-depth and 3-dimensional exploration of the budding yeast phosphoproteome.", "journal": "EMBO reports", "date": "2021-02-03", "authors": "Lanz Michael C, Yugandhar Kumar, Gupta Shagun, Sanford Ethan J, Fa\u00e7a Vitor M, Vega Stephanie, Joiner Aaron M N, Fromme J Christopher, Yu Haiyuan, Smolka Marcus B", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423", "database": "PubMed", "categories": [ "Other" ] }, { "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963", "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": "QQQQQQQQQQRQGQNQRKIS", "down_seq": "SNSTEIPSVTGPDALKSQQQ", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser287", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03761", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03761" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "19779198", "url": "https://glygen.org/publication/PubMed/19779198" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" }, { "database": "SGD", "id": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552" }, { "database": "PubMed", "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963" }, { "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": "Ser287" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "369", "end_pos": "369" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "534", "end_pos": "534" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 1, "direction": "downstream", "id": "Q03761-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03761-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03761-1.290.290", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "upstream", "id": "Q03761-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03761-1.295.295", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 9 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03761-1.288.288", "start_pos": 288, "end_pos": 288, "uniprot_canonical_ac": "Q03761-1", "length": 539, "uniprot_id": "TAF12_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF12", "refseq_ac": "NP_010429", "refseq_name": "Taf12p", "gene_name": "TAF12", "gene_names_uniprotkb": "TAF12; TAF61; TAF68; YD8358.02", "gene_names_refseq": "TAF12; TAF61; TAF68", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" } ], "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": "Q03761", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03761" }, { "database": "O-GlcNAc Atlas", "id": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761" } ], "reference": [ { "type": "PubMed", "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814" } ] }, { "title": "In-depth profiling of post-translational modifications on the related transcription factor complexes TFIID and SAGA.", "journal": "Journal of proteome research", "date": "2009-11", "authors": "Mischerikow Nikolai, Spedale Gianpiero, Altelaar A F Maarten, Timmers H Th Marc, Pijnappel W W M Pim, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963" } ] }, { "title": "Cross-compartment signal propagation in the mitotic exit network.", "journal": "eLife", "date": "2021-01-22", "authors": "Zhou Xiaoxue, Li Wenxue, Liu Yansheng, Amon Angelika", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963", "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": "QQQQQQQQQRQGQNQRKISS", "down_seq": "NSTEIPSVTGPDALKSQQQQ", "glycosylation": [ { "glytoucan_ac": "G49108TO", "type": "O-linked", "subtype": "O-GlcNAcylation", "prediction_tool_list": [], "site_category": "reported_with_glycan", "site_category_dict": { "reported_with_glycan": true }, "site_seq": "S", "relation": "attached", "comment": "O-GlcNAcylation", "icn3d_view": {}, "start_aa": "Ser", "end_aa": "Ser", "residue": "Ser", "site_lbl": "Ser288", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03761", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03761" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552" }, { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" }, { "database": "PubMed", "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963" }, { "database": "PubMed", "id": "33481703", "url": "https://glygen.org/publication/PubMed/33481703" } ], "site_lbl": "Ser288" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "369", "end_pos": "369" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "534", "end_pos": "534" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 2, "direction": "downstream", "id": "Q03761-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "downstream", "id": "Q03761-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "upstream", "id": "Q03761-1.290.290", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "upstream", "id": "Q03761-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03761-1.295.295", "categories": [ "glycosylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 3 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }, { "id": "Q03761-1.290.290", "start_pos": 290, "end_pos": 290, "uniprot_canonical_ac": "Q03761-1", "length": 539, "uniprot_id": "TAF12_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF12", "refseq_ac": "NP_010429", "refseq_name": "Taf12p", "gene_name": "TAF12", "gene_names_uniprotkb": "TAF12; TAF61; TAF68; YD8358.02", "gene_names_refseq": "TAF12; TAF61; TAF68", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" } ], "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": "Q03761", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03761" }, { "database": "O-GlcNAc Atlas", "id": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761" } ], "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": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" }, { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "20702584", "url": "https://glygen.org/publication/PubMed/20702584" } ] }, { "title": "In-depth profiling of post-translational modifications on the related transcription factor complexes TFIID and SAGA.", "journal": "Journal of proteome research", "date": "2009-11", "authors": "Mischerikow Nikolai, Spedale Gianpiero, Altelaar A F Maarten, Timmers H Th Marc, Pijnappel W W M Pim, Heck Albert J R", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761", "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": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963", "database": "PubMed", "categories": [ "Other" ] }, { "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301", "database": "PubMed", "categories": [ "Other" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQQQQQQRQGQNQRKISSSN", "down_seq": "TEIPSVTGPDALKSQQQQQN", "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": "Ser290", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03761", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03761" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" }, { "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": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552" }, { "database": "PubMed", "id": "19731963", "url": "https://glygen.org/publication/PubMed/19731963" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser290" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "369", "end_pos": "369" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "534", "end_pos": "534" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 4, "direction": "downstream", "id": "Q03761-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 3, "direction": "downstream", "id": "Q03761-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 2, "direction": "downstream", "id": "Q03761-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 1, "direction": "upstream", "id": "Q03761-1.291.291", "categories": [ "phosphorylation_flag" ] }, { "distance": 5, "direction": "upstream", "id": "Q03761-1.295.295", "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": "Q03761-1.295.295", "start_pos": 295, "end_pos": 295, "uniprot_canonical_ac": "Q03761-1", "length": 539, "uniprot_id": "TAF12_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF12", "refseq_ac": "NP_010429", "refseq_name": "Taf12p", "gene_name": "TAF12", "gene_names_uniprotkb": "TAF12; TAF61; TAF68; YD8358.02", "gene_names_refseq": "TAF12; TAF61; TAF68", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" } ], "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": "Q03761", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03761" }, { "database": "O-GlcNAc Atlas", "id": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761" } ], "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": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "QQRQGQNQRKISSSNSTEIP", "down_seq": "VTGPDALKSQQQQQNTITAT", "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": "Ser295", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03761", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03761" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "369", "end_pos": "369" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "534", "end_pos": "534" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 9, "direction": "downstream", "id": "Q03761-1.286.286", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 8, "direction": "downstream", "id": "Q03761-1.287.287", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "downstream", "id": "Q03761-1.288.288", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 5, "direction": "downstream", "id": "Q03761-1.290.290", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 4, "direction": "downstream", "id": "Q03761-1.291.291", "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": "Q03761-1.325.325", "start_pos": 325, "end_pos": 325, "uniprot_canonical_ac": "Q03761-1", "length": 539, "uniprot_id": "TAF12_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF12", "refseq_ac": "NP_010429", "refseq_name": "Taf12p", "gene_name": "TAF12", "gene_names_uniprotkb": "TAF12; TAF61; TAF68; YD8358.02", "gene_names_refseq": "TAF12; TAF61; TAF68", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" } ], "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": "Q03761", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03761" }, { "database": "O-GlcNAc Atlas", "id": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761" } ], "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": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" }, { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] }, { "title": "A proteome-wide analysis of kinase-substrate network in the DNA damage response.", "journal": "The Journal of biological chemistry", "date": "2010-04-23", "authors": "Chen Sheng-hong, Albuquerque Claudio P, Liang Jason, Suhandynata Raymond T, Zhou Huilin", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "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": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552", "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": "QQQQQNTITATNNPRGNVNT", "down_seq": "QTEQSKAKVTNVNATASMLN", "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": "Ser325", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03761", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03761" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "P38110-1", "kinase_gene_name": "TEL1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ], "site_lbl": "Ser325" }, { "kinase_uniprot_canonical_ac": "P38111-1", "kinase_gene_name": "MEC1", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "PubMed", "id": "20190278", "url": "https://glygen.org/publication/PubMed/20190278" } ], "site_lbl": "Ser325" }, { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552" }, { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" }, { "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": "Ser325" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "369", "end_pos": "369" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "534", "end_pos": "534" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "upstream", "id": "Q03761-1.330.330", "categories": [ "glycosylation_flag" ] }, { "distance": 17, "direction": "upstream", "id": "Q03761-1.342.342", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 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": "Q03761-1.330.330", "start_pos": 330, "end_pos": 330, "uniprot_canonical_ac": "Q03761-1", "length": 539, "uniprot_id": "TAF12_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF12", "refseq_ac": "NP_010429", "refseq_name": "Taf12p", "gene_name": "TAF12", "gene_names_uniprotkb": "TAF12; TAF61; TAF68; YD8358.02", "gene_names_refseq": "TAF12; TAF61; TAF68", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" } ], "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": "Q03761", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03761" }, { "database": "O-GlcNAc Atlas", "id": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761" } ], "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": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "NTITATNNPRGNVNTSQTEQ", "down_seq": "KAKVTNVNATASMLNNISSS", "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": "Ser330", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03761", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03761" } ] } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "369", "end_pos": "369" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "534", "end_pos": "534" } ] } ], "categories": [ "glycosylation_flag" ], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 5, "direction": "downstream", "id": "Q03761-1.325.325", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "upstream", "id": "Q03761-1.342.342", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 18, "direction": "upstream", "id": "Q03761-1.348.348", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 19, "direction": "upstream", "id": "Q03761-1.349.349", "categories": [ "glycosylation_flag" ] }, { "distance": 20, "direction": "upstream", "id": "Q03761-1.350.350", "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": "Q03761-1.342.342", "start_pos": 342, "end_pos": 342, "uniprot_canonical_ac": "Q03761-1", "length": 539, "uniprot_id": "TAF12_YEAST", "protein_name": "SAGA complex/transcription factor TFIID complex subunit TAF12", "refseq_ac": "NP_010429", "refseq_name": "Taf12p", "gene_name": "TAF12", "gene_names_uniprotkb": "TAF12; TAF61; TAF68; YD8358.02", "gene_names_refseq": "TAF12; TAF61; TAF68", "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" } ], "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": "Q03761", "url": "https://www.oglcnac.mcw.edu/search/?query_protein=Q03761" }, { "database": "O-GlcNAc Atlas", "id": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761" } ], "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": "Q03761", "url": "https://www.uniprot.org/uniprotkb/Q03761" }, { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" } ], "reference": [ { "type": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" } ] } ], "crossref": [ { "id": "33229814", "url": "https://glygen.org/publication/PubMed/33229814", "database": "PubMed", "categories": [ "Other" ] }, { "id": "Q03761", "url": "https://oglcnac.org/atlas/detail/Q03761", "database": "O-GlcNAc Atlas", "categories": [ "Glycoproteomics" ] }, { "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761", "database": "iPTMnet", "categories": [ "Other" ] }, { "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956", "database": "PubMed", "categories": [ "Other" ] }, { "id": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552", "database": "SGD", "categories": [ "Organism-specific" ] } ], "site_seq": "S", "start_aa": "S", "up_seq": "VNTSQTEQSKAKVTNVNATA", "down_seq": "MLNNISSSKSAIFKQTEPAI", "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": "Ser342", "evidence": [ { "id": "33229814", "database": "PubMed", "url": "https://glygen.org/publication/PubMed/33229814" }, { "id": "Q03761", "database": "O-GlcNAc Atlas", "url": "https://oglcnac.org/atlas/detail/Q03761" } ] } ], "phosphorylation": [ { "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q03761", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q03761" }, { "database": "PubMed", "id": "18407956", "url": "https://glygen.org/publication/PubMed/18407956" }, { "database": "SGD", "id": "S000002552", "url": "https://www.yeastgenome.org/locus/S000002552" } ], "site_lbl": "Ser342" } ], "all_sites": [ { "type": "glycosylation", "site_list": [ { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "295", "end_pos": "295" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "330", "end_pos": "330" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "349", "end_pos": "349" }, { "start_pos": "350", "end_pos": "350" }, { "start_pos": "365", "end_pos": "365" }, { "start_pos": "369", "end_pos": "369" } ] }, { "type": "phosphorylation", "site_list": [ { "start_pos": "129", "end_pos": "129" }, { "start_pos": "133", "end_pos": "133" }, { "start_pos": "141", "end_pos": "141" }, { "start_pos": "286", "end_pos": "286" }, { "start_pos": "287", "end_pos": "287" }, { "start_pos": "288", "end_pos": "288" }, { "start_pos": "290", "end_pos": "290" }, { "start_pos": "291", "end_pos": "291" }, { "start_pos": "325", "end_pos": "325" }, { "start_pos": "342", "end_pos": "342" }, { "start_pos": "348", "end_pos": "348" }, { "start_pos": "352", "end_pos": "352" }, { "start_pos": "372", "end_pos": "372" }, { "start_pos": "380", "end_pos": "380" }, { "start_pos": "394", "end_pos": "394" }, { "start_pos": "470", "end_pos": "470" }, { "start_pos": "494", "end_pos": "494" }, { "start_pos": "534", "end_pos": "534" } ] } ], "categories": [ "glycosylation_flag", "phosphorylation_flag" ], "mutagenesis": [], "snv": [], "glycation": [], "biomarkers": [], "neighbors": [ { "distance": 17, "direction": "downstream", "id": "Q03761-1.325.325", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 12, "direction": "downstream", "id": "Q03761-1.330.330", "categories": [ "glycosylation_flag" ] }, { "distance": 6, "direction": "upstream", "id": "Q03761-1.348.348", "categories": [ "glycosylation_flag", "phosphorylation_flag" ] }, { "distance": 7, "direction": "upstream", "id": "Q03761-1.349.349", "categories": [ "glycosylation_flag" ] }, { "distance": 8, "direction": "upstream", "id": "Q03761-1.350.350", "categories": [ "glycosylation_flag" ] }, { "distance": 10, "direction": "upstream", "id": "Q03761-1.352.352", "categories": [ "phosphorylation_flag" ] } ], "glycosylation_flag": true, "snv_flag": false, "mutagenesis_flag": false, "phosphorylation_flag": true, "glycation_flag": false, "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 1 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 1 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 1 }, { "field": "exact_sites", "count": 0 }, { "field": "fuzzy_sites", "count": 1 }, { "field": "fuzzy_o_linked_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycan_sites", "count": 1 }, { "field": "fuzzy_o_linked_glycans", "count": 1 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_aa", "end_aa", "residue", "site_lbl" ] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] } ]