{ "uniprot_canonical_ac": "Q12229-1", "uniprot_ac": "Q12229", "uniprot_id": "UBX3_YEAST", "mass": { "chemical_mass": 52943.0, "monoisotopic_mass": 52943.0 }, "refseq": { "ac": "NP_010192", "name": "Ubx3p", "summary": "", "url": "https://www.ncbi.nlm.nih.gov/protein/NP_010192" }, "gene_names": [ { "name": "UBX3", "resource": "UniProtKB", "type": "recommended", "url": "https://www.uniprot.org/uniprot/Q12229", "id": "Q12229" }, { "name": "UBX3", "resource": "RefSeq", "type": "synonym", "url": "https://www.ncbi.nlm.nih.gov/protein/NP_010192", "id": "NP_010192" } ], "protein_names": [ { "name": "UBX domain-containing protein 3", "resource": "UniProtKB", "type": "recommended", "url": "", "id": "Q12229" }, { "name": "Ubx3p", "resource": "RefSeq", "type": "synonym", "url": "https://www.ncbi.nlm.nih.gov/protein/NP_010192", "id": "NP_010192" } ], "function": [ { "annotation": "Component of the DSC E3 ubiquitin ligase complexes that tag proteins present in Golgi, endosome and vacuole membranes and function in protein homeostasis under non-stress conditions and support a role in protein quality control (PubMed:25078903, PubMed:29355480). Involved in CDC48-dependent protein degradation through the ubiquitin/proteasome pathway. Involved in delivery of substrates to the 26S proteasome. Also required for membrane fusion (By similarity).", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229#function" }, { "database": "PubMed", "id": "29355480", "url": "https://glygen.org/publication/PubMed/29355480" }, { "database": "PubMed", "id": "25078903", "url": "https://glygen.org/publication/PubMed/25078903" } ] } ], "disease": [], "snv": [], "mutagenesis": [], "expression_tissue": [], "expression_disease": [], "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "common_name": "Yeast" } ], "gene": [ { "name": "UBX3", "url": "https://www.uniprot.org/uniprot/Q12229", "locus": {} } ], "crossref": [ { "id": "cd01767", "url": "https://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=cd01767", "database": "CDD", "categories": [ "Protein Classification" ] }, { "id": "851467", "url": "https://www.ncbi.nlm.nih.gov/gene/851467", "database": "GeneID", "categories": [ "Genome Annotation" ] }, { "id": "Q12229", "url": "https://www.ebi.ac.uk/intact/interactors/id:Q12229*", "database": "IntAct", "categories": [ "Other" ] }, { "id": "IPR001012", "url": "https://www.ebi.ac.uk/interpro/entry/IPR001012", "database": "InterPro", "categories": [ "Protein Classification" ] }, { "id": "IPR006577", "url": "https://www.ebi.ac.uk/interpro/entry/IPR006577", "database": "InterPro", "categories": [ "Protein Classification" ] }, { "id": "IPR029071", "url": "https://www.ebi.ac.uk/interpro/entry/IPR029071", "database": "InterPro", "categories": [ "Protein Classification" ] }, { "id": "IPR036249", "url": "https://www.ebi.ac.uk/interpro/entry/IPR036249", "database": "InterPro", "categories": [ "Protein Classification" ] }, { "id": "sce:YDL091C", "url": "https://www.genome.jp/dbget-bin/get_linkdb?-t+pathway+sce:YDL091C", "database": "KEGG Pathway", "categories": [ "Enzyme and Pathway" ] }, { "id": "FFQGSYT", "url": "https://omabrowser.org/oma/group/FFQGSYT/", "database": "OMA", "categories": [ "Protein Classification" ] }, { "id": "1331369at2759", "url": "http://www.orthodb.org/?query=1331369at2759", "database": "OrthoDB", "categories": [ "Protein Classification" ] }, { "id": "PTHR23322", "url": "http://www.pantherdb.org/panther/family.do?clsAccession=PTHR23322", "database": "PANTHER", "categories": [ "Protein Classification" ] }, { "id": "PTHR23322:SF103", "url": "http://www.pantherdb.org/panther/family.do?clsAccession=PTHR23322:SF103", "database": "PANTHER", "categories": [ "Protein Classification" ] }, { "id": "PF00789", "url": "http://pfam.xfam.org/family/PF00789", "database": "Pfam", "categories": [ "Protein Classification" ] }, { "id": "PR_Q12229", "url": "http://purl.obolibrary.org/obo/PR_Q12229", "database": "PRO", "categories": [ "Protein" ] }, { "id": "NP_010192", "url": "https://www.ncbi.nlm.nih.gov/protein/NP_010192", "database": "RefSeq", "categories": [ "Protein" ] }, { "id": "S000002249", "url": "https://www.yeastgenome.org/locus/S000002249", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "Q12229-1", "url": "https://www.uniprot.org/uniprot/Q12229-1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "sequence": { "sequence": "MDIFRHTFGNNDDSFIRIPGAFREEPPADLNGRTEDQNSNTNEPTQSRDGRLKSILHFLFQAPLIVLYYLLNFIVRSSRLLKPLLRLHGFYQRKHNRLLDHSSQLHRLLENLENEAQAVTCSEGNGNNDDGSNTDSTSNNESSGVQFSFGSLYNPENGTFSKSIMQNSYTELLDACSEQVKFGVIYLHDPLLDNHMDYVNKILCSEAFVNMIRKYQVLLWYGDVTTSEGLQVSNALKIRQYPLLGIISLKAEKKIELIARVEGSISNYKAQDLEAIFSKNYSRLIQLRQQRQNIEMQRLIRQQQDSRYQDSLRRDQQRESERLEQTQREQMEREHQRIENQWLLWRKSQLKPEPSSDKDASKVAIRLENGQRLVRKFDASLPTEEIYAFVELQLHDMLNSENDTLPVYQPANYQHQYSFKLITPVPRRELDLSTKISDVSGIYPSGNIVMERLDE", "length": 455, "header": "sp|Q12229-1|UBX3_YEAST Isoform 1 of UBX domain-containing protein 3 OS=Saccharomyces cerevisiae S288C OX=559292 GN=UBX3 PE=1 SV=1 CANONICAL=Q12229-1" }, "isoforms": [ { "isoform_ac": "Q12229-1", "url": "", "sequence": { "sequence": "MDIFRHTFGNNDDSFIRIPGAFREEPPADLNGRTEDQNSNTNEPTQSRDGRLKSILHFLFQAPLIVLYYLLNFIVRSSRLLKPLLRLHGFYQRKHNRLLDHSSQLHRLLENLENEAQAVTCSEGNGNNDDGSNTDSTSNNESSGVQFSFGSLYNPENGTFSKSIMQNSYTELLDACSEQVKFGVIYLHDPLLDNHMDYVNKILCSEAFVNMIRKYQVLLWYGDVTTSEGLQVSNALKIRQYPLLGIISLKAEKKIELIARVEGSISNYKAQDLEAIFSKNYSRLIQLRQQRQNIEMQRLIRQQQDSRYQDSLRRDQQRESERLEQTQREQMEREHQRIENQWLLWRKSQLKPEPSSDKDASKVAIRLENGQRLVRKFDASLPTEEIYAFVELQLHDMLNSENDTLPVYQPANYQHQYSFKLITPVPRRELDLSTKISDVSGIYPSGNIVMERLDE", "length": 455, "header": "sp|Q12229-1|UBX3_YEAST Isoform 1 of UBX domain-containing protein 3 OS=Saccharomyces cerevisiae S288C OX=559292 GN=UBX3 PE=1 SV=1 CANONICAL=Q12229-1" }, "locus": { "chromosome": "IV", "start_pos": 294759, "end_pos": 293395, "strand": "+", "evidence": [ { "database": "Ensembl Transcript", "id": "YDL091C_mRNA", "url": "https://www.ensembl.org/id/YDL091C_mRNA" }, { "database": "Ensembl Peptide", "id": "YDL091C", "url": "https://www.ensembl.org/id/YDL091C" } ] } } ], "glycosylation": [], "phosphorylation": [ { "start_pos": 39, "end_pos": 39, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "SGD", "id": "Q12229", "url": "https://www.yeastgenome.org/locus/Q12229" }, { "database": "iPTMnet", "id": "Q12229", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q12229" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser39" } ], "glycation": [], "keywords": [], "publication": [ { "title": "Global analysis of protein localization in budding yeast.", "journal": "Nature", "date": "2003", "authors": "Weissman J.S., Carroll A.S., Howson R.W., Huh W.-K., O'Shea E.K., Falvo J.V., Gerke L.C.", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "reference": [ { "type": "PubMed", "id": "14562095", "url": "https://glygen.org/publication/PubMed/14562095" } ] }, { "title": "Global analysis of protein expression in yeast.", "journal": "Nature", "date": "2003", "authors": "Dephoure N., Weissman J.S., Howson R.W., Huh W.-K., O'Shea E.K., Belle A., Bower K., Ghaemmaghami S.", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "reference": [ { "type": "PubMed", "id": "14562106", "url": "https://glygen.org/publication/PubMed/14562106" } ] }, { "title": "Shp1 and Ubx2 are adaptors of Cdc48 involved in ubiquitin-dependent protein degradation.", "journal": "EMBO Rep.", "date": "2004", "authors": "Buchberger A., Richly H., Rumpf S., Schuberth C.", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "reference": [ { "type": "PubMed", "id": "15258615", "url": "https://glygen.org/publication/PubMed/15258615" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q12229", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q12229" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "The reference genome sequence of Saccharomyces cerevisiae: Then and now.", "journal": "G3 (Bethesda)", "date": "2014", "authors": "Engel Stacia R, Dietrich Fred S, Fisk Dianna G, Binkley Gail, Balakrishnan Rama, Costanzo Maria C, Dwight Selina S, Hitz Benjamin C, Karra Kalpana, Nash Robert S, Weng Shuai, Wong Edith D, Lloyd Paul, Skrzypek Marek S, Miyasato Stuart R, Simison Matt, Cherry J Michael", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "reference": [ { "type": "PubMed", "id": "24374639", "url": "https://glygen.org/publication/PubMed/24374639" } ] }, { "title": "Identification of candidate substrates for the Golgi Tul1 E3 ligase using quantitative diGly proteomics in yeast.", "journal": "Mol. Cell. Proteomics", "date": "2014", "authors": "Pandey A., Kim M.S., Tong Z., Espenshade P.J.", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "reference": [ { "type": "PubMed", "id": "25078903", "url": "https://glygen.org/publication/PubMed/25078903" } ] }, { "title": "The sequence of a 16,691 bp segment of Saccharomyces cerevisiae chromosome IV identifies the DUN1, PMT1, PMT5, SRP14 and DPR1 genes, and five new open reading frames.", "journal": "Yeast", "date": "1996", "authors": "Jimenez A., Boskovic J., Ballesta J.P.G., Remacha M.A., Garcia-Cantalejo J.M., Soler-Mira A.", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "reference": [ { "type": "PubMed", "id": "8923743", "url": "https://glygen.org/publication/PubMed/8923743" } ] }, { "title": "The nucleotide sequence of Saccharomyces cerevisiae chromosome IV.", "journal": "Nature", "date": "1997", "authors": "Andrews S., Bahr A., Bloecker H., Brandt P., Connor R., Du Z., Fulton L., Gentles S., Hawkins J., Hillier L.W., Johnson D., Latreille P., Mardis E., Mewes H.-W., Miller N., Niblett D., Oliver K., Schaefer M., Scharfe M., Vaudin M., Wambutt R., Waterston R., Wedler H., Wilson R., Chen E., Le T., Verhasselt P., Bowman S., Hunt S., Wagner G., Chung E., Nakahara K., Botstein D., Brueckner M., Davis R.W., Lin D., Hankeln T., Schneider C., Schmidt E.R., Duncan M., Favello A., Kucaba T., Rifkin L., Trevaskis E., Wohldman P., Barrell B.G., Rieger M., Berno A., Schroeder M., Ding H., Oh C., Oefner P., Schwarz S., Woelfl S., Kleine K., Becker A., Prydz H., Cooper J., Arnold W., Eide L.G., Kraemer C., Lashkari D., Allen E., Jimenez A., Kuester H., Hoheisel J.D., Pauley A., Paulin L., Brown D., Jaeger W., Volckaert G., Hyman R.W., Andre B., Perez-Alonso M., Araujo R., Komp C., Lew H., Namath A., Roberts D., Paricio N., Boskovic J., Louis E.J., Mulligan J.T., Delaveau T., Greco T., Johnston L., Nhan M., Jones L., Odell C., Menezes S., Johnston M., Pohl T.M., Harris D.E., Schramm S., McDonald S., Salom D., Bargues M., Cherry J.M., Ballesta J.P.G., Churcher C.M., Dedman K., Dietrich F.S., Dujon B., Goffeau A., Hamlin N., Hani J., Jacq C., Mueller-Auer S., Perea J., Perez-Ortin J.E., Rajandream M.A., Remacha M.A., Revuelta J.L., Vissers S., Walsh S.V., Zollner A., del Rey F., Jonniaux J.-L., Purnelle B., Saiz J.E., Urrestarazu L.A., Voet M., Wilcox L., Albermann K., Alt-Moerbe J., Aviles E., Baron L., Biteau N., Blugeon C., Brinkman R., Buitrago M.J., Carpenter J., Coster F., Garcia-Cantalejo J.M., Gattung S., Gomez-Peris A., Granotier C., Hallsworth K., Hanemann V., Heumann K., Hunicke-Smith S., Jier M., Kirsten J., Laamanen P., Langston Y., Legros Y., Moeller-Rieker S., Monnet A., Moro M., Mosedale D., Murphy L.D., Nussbaumer B., Peluso D., Petel F.X., Rasmussen S.W., Richards C., Riles L., Saluz H.P., Saren A.-M., Scholler P., Shogren T., Shore L., Shroff N., Soler-Mira A., Taich A., Vignati D., Wedler E., Winant A., Yelton M.A., Zaccaria P.", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "reference": [ { "type": "PubMed", "id": "9169867", "url": "https://glygen.org/publication/PubMed/9169867" } ] } ], "pathway": [ { "id": "sce:YDL091C", "name": "", "url": "https://www.genome.jp/dbget-bin/get_linkdb?-t+pathway+sce:YDL091C", "resource": "KEGG Pathway" } ], "orthologs": [], "go_annotation": { "categories": [ { "name": "Cellular Component", "total": 5, "go_terms": [ { "name": "Golgi membrane", "id": "GO:0000139", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0000139", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" }, { "name": "cytoplasm", "id": "GO:0005737", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0005737", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" }, { "name": "endoplasmic reticulum", "id": "GO:0005783", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0005783", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" }, { "name": "clathrin-coated vesicle", "id": "GO:0030136", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0030136", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" }, { "name": "Dsc E3 ubiquitin ligase complex", "id": "GO:0044695", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0044695", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" } ] }, { "name": "Biological Process", "total": 4, "go_terms": [ { "name": "protein ubiquitination", "id": "GO:0016567", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0016567", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" }, { "name": "clathrin-dependent endocytosis", "id": "GO:0072583", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0072583", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" }, { "name": "ubiquitin-dependent protein catabolic process", "id": "GO:0006511", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0006511", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" }, { "name": "ubiquitin-dependent ERAD pathway", "id": "GO:0030433", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0030433", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" } ] }, { "name": "Molecular Function", "total": 2, "go_terms": [ { "name": "clathrin binding", "id": "GO:0030276", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0030276", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" }, { "name": "ubiquitin binding", "id": "GO:0043130", "url": "https://www.ebi.ac.uk/QuickGO/term/GO:0043130", "evidence": [ { "database": "UniProtKB", "id": "Q12229", "url": "https://www.uniprot.org/uniprot/Q12229" } ], "pmid": "" } ] } ] }, "pro_annotation": [], "site_annotation": [ { "start_pos": 140, "end_pos": 142, "annotation": "n_glycosylation_sequon" }, { "start_pos": 157, "end_pos": 159, "annotation": "n_glycosylation_sequon" }, { "start_pos": 280, "end_pos": 282, "annotation": "n_glycosylation_sequon" }, { "start_pos": 402, "end_pos": 404, "annotation": "n_glycosylation_sequon" } ], "ptm_annotation": [], "interactions": [], "reactions": [], "reaction_participants": [], "reaction_enzymes": [], "biomarkers": [], "synthesized_glycans": [], "cluster_types": [], "section_stats": [ { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 } ], "sort_fields": [ "start_pos", "end_pos", "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl" ] }, { "table_id": "snv", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_disease", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "snv_non_disease", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "publication", "table_stats": [ { "field": "total", "count": 8 } ], "sort_fields": [ "title", "journal", "date", "authors" ] } ] }