{ "uniprot_canonical_ac": "Q04781-1", "uniprot_ac": "Q04781", "uniprot_id": "LTN1_YEAST", "mass": { "chemical_mass": 180186.0, "monoisotopic_mass": 180186.0 }, "refseq": { "ac": "NP_013975", "name": "ubiquitin-protein ligase RKR1", "summary": "", "url": "https://www.ncbi.nlm.nih.gov/protein/NP_013975" }, "gene_names": [ { "name": "RKR1", "resource": "UniProtKB", "type": "recommended", "url": "https://www.uniprot.org/uniprot/Q04781", "id": "Q04781" }, { "name": "LTN1", "resource": "RefSeq", "type": "synonym", "url": "https://www.ncbi.nlm.nih.gov/protein/NP_013975", "id": "NP_013975" }, { "name": "LTN1", "resource": "UniProtKB", "type": "synonym", "url": "https://www.uniprot.org/uniprot/Q04781", "id": "Q04781" }, { "name": "RKR1", "resource": "RefSeq", "type": "synonym", "url": "https://www.ncbi.nlm.nih.gov/protein/NP_013975", "id": "NP_013975" }, { "name": "YM9408.09C", "resource": "UniProtKB", "type": "synonym", "url": "https://www.uniprot.org/uniprot/Q04781", "id": "Q04781" }, { "name": "YM9920.01C", "resource": "UniProtKB", "type": "synonym", "url": "https://www.uniprot.org/uniprot/Q04781", "id": "Q04781" } ], "protein_names": [ { "name": "E3 ubiquitin-protein ligase listerin", "resource": "UniProtKB", "type": "recommended", "url": "", "id": "Q04781" }, { "name": "2.3.2.27", "resource": "UniProtKB", "type": "synonym", "url": "", "id": "Q04781" }, { "name": "RING domain mutant killed by rtf1 deletion protein 1", "resource": "UniProtKB", "type": "synonym", "url": "", "id": "Q04781" }, { "name": "RING-type E3 ubiquitin transferase listerin", "resource": "UniProtKB", "type": "synonym", "url": "", "id": "Q04781" }, { "name": "ubiquitin-protein ligase RKR1", "resource": "RefSeq", "type": "synonym", "url": "https://www.ncbi.nlm.nih.gov/protein/NP_013975", "id": "NP_013975" } ], "function": [ { "annotation": "E3 ubiquitin-protein ligase component of the ribosome quality control complex (RQC), a ribosome-associated complex that mediates ubiquitination and extraction of incompletely synthesized nascent chains for proteasomal degradation (PubMed:23178123, PubMed:26055716, PubMed:26934223, PubMed:31133701, PubMed:27385828, PubMed:36804914). Mediates ubiquitination of proteins derived from mRNAs lacking stop codons (non-stop proteins) and other translation arrest products induced by poly-lysine sequences and tandem rare codons (PubMed:20835226, PubMed:23825054, PubMed:24261871, PubMed:26934223, PubMed:31133701). Ubiquitination leads to CDC48 recruitment for extraction and degradation of the incomplete translation product (PubMed:26055716, PubMed:27129255). May indirectly play a role in chromatin function and transcription (PubMed:17283062).", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781#function" }, { "database": "PubMed", "id": "23178123", "url": "https://glygen.org/publication/PubMed/23178123" }, { "database": "PubMed", "id": "23825054", "url": "https://glygen.org/publication/PubMed/23825054" }, { "database": "PubMed", "id": "31133701", "url": "https://glygen.org/publication/PubMed/31133701" }, { "database": "PubMed", "id": "27129255", "url": "https://glygen.org/publication/PubMed/27129255" }, { "database": "PubMed", "id": "36804914", "url": "https://glygen.org/publication/PubMed/36804914" }, { "database": "PubMed", "id": "24261871", "url": "https://glygen.org/publication/PubMed/24261871" }, { "database": "PubMed", "id": "26934223", "url": "https://glygen.org/publication/PubMed/26934223" }, { "database": "PubMed", "id": "26055716", "url": "https://glygen.org/publication/PubMed/26055716" }, { "database": "PubMed", "id": "17283062", "url": "https://glygen.org/publication/PubMed/17283062" }, { "database": "PubMed", "id": "20835226", "url": "https://glygen.org/publication/PubMed/20835226" } ] } ], "disease": [], "snv": [], "mutagenesis": [ { "start_pos": 1508, "end_pos": 1508, "sequence_org": "C", "sequence_mut": "A", "comment": "Abolishes catalytic activity.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" }, { "database": "PubMed", "id": "17283062", "url": "https://glygen.org/publication/PubMed/17283062" } ] }, { "start_pos": 1542, "end_pos": 1542, "sequence_org": "W", "sequence_mut": "A", "comment": "Abolishes ability to control levels of proteins with 'non-stop'.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" }, { "database": "PubMed", "id": "20835226", "url": "https://glygen.org/publication/PubMed/20835226" } ] }, { "start_pos": 1542, "end_pos": 1542, "sequence_org": "W", "sequence_mut": "E", "comment": "Abolishes ability to control levels of proteins with 'non-stop'.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" }, { "database": "PubMed", "id": "20835226", "url": "https://glygen.org/publication/PubMed/20835226" } ] }, { "start_pos": 57, "end_pos": 57, "sequence_org": "R", "sequence_mut": "A", "comment": "Reduced binding to stalled 60S ribosomal subunits.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" }, { "database": "PubMed", "id": "27385828", "url": "https://glygen.org/publication/PubMed/27385828" } ] }, { "start_pos": 61, "end_pos": 61, "sequence_org": "T", "sequence_mut": "A", "comment": "Reduced binding to stalled 60S ribosomal subunits.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" }, { "database": "PubMed", "id": "27385828", "url": "https://glygen.org/publication/PubMed/27385828" } ] } ], "expression_tissue": [], "expression_disease": [], "species": [ { "name": "Saccharomyces cerevisiae S288C", "taxid": 559292, "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "common_name": "Yeast" } ], "gene": [ { "name": "RKR1", "url": "https://www.uniprot.org/uniprot/Q04781", "locus": { "chromosome": "XIII", "start_pos": 763351, "end_pos": 768039, "strand": "+", "evidence": [ { "database": "Ensembl Gene", "id": "YMR247C", "url": "https://www.ensembl.org/id/YMR247C" } ] } } ], "crossref": [ { "id": "cd16491", "url": "https://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=cd16491", "database": "CDD", "categories": [ "Protein Classification" ] }, { "id": "855289", "url": "https://www.ncbi.nlm.nih.gov/gene/855289", "database": "GeneID", "categories": [ "Genome Annotation" ] }, { "id": "Q04781", "url": "https://www.ebi.ac.uk/intact/interactors/id:Q04781*", "database": "IntAct", "categories": [ "Other" ] }, { "id": "IPR001841", "url": "https://www.ebi.ac.uk/interpro/entry/IPR001841", "database": "InterPro", "categories": [ "Protein Classification" ] }, { "id": "IPR011016", "url": "https://www.ebi.ac.uk/interpro/entry/IPR011016", "database": "InterPro", "categories": [ "Protein Classification" ] }, { "id": "IPR013083", "url": "https://www.ebi.ac.uk/interpro/entry/IPR013083", "database": "InterPro", "categories": [ "Protein Classification" ] }, { "id": "IPR016024", "url": "https://www.ebi.ac.uk/interpro/entry/IPR016024", "database": "InterPro", "categories": [ "Protein Classification" ] }, { "id": "IPR039795", "url": "https://www.ebi.ac.uk/interpro/entry/IPR039795", "database": "InterPro", "categories": [ "Protein Classification" ] }, { "id": "IPR039804", "url": "https://www.ebi.ac.uk/interpro/entry/IPR039804", "database": "InterPro", "categories": [ "Protein Classification" ] }, { "id": "sce:YMR247C", "url": "https://www.genome.jp/dbget-bin/get_linkdb?-t+pathway+sce:YMR247C", "database": "KEGG Pathway", "categories": [ "Enzyme and Pathway" ] }, { "id": "NRFHGAC", "url": "https://omabrowser.org/oma/group/NRFHGAC/", "database": "OMA", "categories": [ "Protein Classification" ] }, { "id": "179130at2759", "url": "http://www.orthodb.org/?query=179130at2759", "database": "OrthoDB", "categories": [ "Protein Classification" ] }, { "id": "PTHR12389", "url": "http://www.pantherdb.org/panther/family.do?clsAccession=PTHR12389", "database": "PANTHER", "categories": [ "Protein Classification" ] }, { "id": "PTHR12389:SF0", "url": "http://www.pantherdb.org/panther/family.do?clsAccession=PTHR12389:SF0", "database": "PANTHER", "categories": [ "Protein Classification" ] }, { "id": "5FG0", "url": "https://www.rcsb.org/structure/5FG0", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "5FG1", "url": "https://www.rcsb.org/structure/5FG1", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8AAF", "url": "https://www.rcsb.org/structure/8AAF", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8AGT", "url": "https://www.rcsb.org/structure/8AGT", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8AGU", "url": "https://www.rcsb.org/structure/8AGU", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8AGV", "url": "https://www.rcsb.org/structure/8AGV", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8AGW", "url": "https://www.rcsb.org/structure/8AGW", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8AGX", "url": "https://www.rcsb.org/structure/8AGX", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "8AGZ", "url": "https://www.rcsb.org/structure/8AGZ", "database": "PDB", "categories": [ "3D Structure" ] }, { "id": "PF13639", "url": "http://pfam.xfam.org/family/PF13639", "database": "Pfam", "categories": [ "Protein Classification" ] }, { "id": "PR_Q04781", "url": "http://purl.obolibrary.org/obo/PR_Q04781", "database": "PRO", "categories": [ "Protein" ] }, { "id": "NP_013975", "url": "https://www.ncbi.nlm.nih.gov/protein/NP_013975", "database": "RefSeq", "categories": [ "Protein" ] }, { "id": "S000004861", "url": "https://www.yeastgenome.org/locus/S000004861", "database": "SGD", "categories": [ "Organism-specific" ] }, { "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781", "database": "UniProtKB", "categories": [ "Protein" ] }, { "id": "Q04781-1", "url": "https://www.uniprot.org/uniprot/Q04781-1", "database": "UniProtKB", "categories": [ "Protein" ] } ], "sequence": { "sequence": "MSFGGINTFQQYNTDLGLGHNGVRISLNYFDGLPDPSLLNSLYSNELKLIFKSLLKRDETTKEKALMDLSNLISDFNQNEYFFNDIFLLCWSQIYAKLIISDYKVIRLQSHQITIMLVKSLRKKISKFLKDFIPLILLGTCELDYSVSKPSLNELTECFNKDPAKINALWAVFQEQLLNLVKEIVVNENEDTISDERYSSKEESEFRYHRVIASAVLLLIKLFVHNKDVSERNSSSLKVILSDESIWKLLNLKNGQNTNAYETVLRLIDVLYTRGYMPSHKNIMKLAVKKLLKSLTHITSKNILKVCPVLPSILNLLATLDDYEDGTIWSYDKSSKEKVLKFLSVSRTSPSPGFFNAVFALYSSTKRHSFLDYYLEWLPFWQKSVQRLNEKGFSARNSAEVLNEFWTNFLKFAEDSSEERVKKMVESEIFNSLSCGKSLSEYTKLNQTLSGVFPPDKWEREIEDYFTSDEDIRKIKVSFEKNLFALLVTSPNNESAISRLFDFFVQLIETDPSNVFNKYDGVYDALNYFLDSDMIFLNGKIGKFINEIPTLVQESTYQNFAGIMAQYSNSKFFKMNTDAITSLEDFFIVALSFNLPKTIILATMNELDNDIYQQLMKSDSLELELYIEDFMKNYKFDDSGEIFKGNNKFLNQRTITTLYRSAVANGQVEQFCAVLSKLDETFFSTLLLNTDFLSCALYEVSEDTNEKLFKLSLQLAKGNSEIANKLAQVILQHAQVYFSPGAKEKYVTHAVELINGCNDTSQIFFPANAIEVFARYMPAIDYRSSLVSSLSTNTHLLLTDDKPINLKNMQKLIRYALFLDALLDALPERVNNHIVAFITVVSELVTDYNCLSEEPNDLYYDFGHTFFKHGKVNLNFSDIVGNVIQPANGGDAMLTFDIAESNSVYFFYYSRVLYKVLLNSIDTVSSTTLNGLLASVESFVTKTVRDQKSTDKDYLLCAILLLMFNRSNSKDEITKLRTLLASQLIGIREVELVDQEFKSLALLNNLLDIPQADKQFVPIAPQRLNMIFRSILKWLDSDLAYEPSFSTVRLLLLDFFTKLMRFEGVRDMGITAFELSERLLADSLSMCQIDDTLYLLELRSSCLNLYETLSQGVSKNGEEISEYGDEIQENLIELMFLNFNQERNNQVSTLFYQKLYKVISSMELKKLESQYKRIFEVVLNDKDIGSNINQSRLLTTLLGSLVVKTQQDIIIEYELRIQKQTGSDVDGSASDNDVNSKFKLPQKLLQKVTDEVPKEYLEYENKNSFIKYLWYWHLILMYFKDTSYNMRQIFIEQLKEAGLINRMFDFITDQIDLRDTEFWKQVDTKEISEYNIVGNNFSPYKEDIFEECKKLLGHTLYQLFNNVGCLTSIWWLNIKDRTLQNDIEKFVSEFISPILIKNEFDDINSKMDRLTSNDDALTIKLNNITNEVKASYLIDDQKLEISFKLPKNYPLTNIQVNGVSRVGISEQKWKQWIMSTQHVITGMNGSVLDSLELFTKNVHLQFSGFEECAICYSILHAVDRKLPSKTCPTCKNKFHGACLYKWFRSSGNNTCPLCRSEIPFRR", "length": 1562, "header": "sp|Q04781-1|LTN1_YEAST Isoform 1 of E3 ubiquitin-protein ligase listerin OS=Saccharomyces cerevisiae S288C OX=559292 GN=RKR1 PE=1 SV=1 CANONICAL=Q04781-1" }, "isoforms": [ { "isoform_ac": "Q04781-1", "url": "", "sequence": { "sequence": "MSFGGINTFQQYNTDLGLGHNGVRISLNYFDGLPDPSLLNSLYSNELKLIFKSLLKRDETTKEKALMDLSNLISDFNQNEYFFNDIFLLCWSQIYAKLIISDYKVIRLQSHQITIMLVKSLRKKISKFLKDFIPLILLGTCELDYSVSKPSLNELTECFNKDPAKINALWAVFQEQLLNLVKEIVVNENEDTISDERYSSKEESEFRYHRVIASAVLLLIKLFVHNKDVSERNSSSLKVILSDESIWKLLNLKNGQNTNAYETVLRLIDVLYTRGYMPSHKNIMKLAVKKLLKSLTHITSKNILKVCPVLPSILNLLATLDDYEDGTIWSYDKSSKEKVLKFLSVSRTSPSPGFFNAVFALYSSTKRHSFLDYYLEWLPFWQKSVQRLNEKGFSARNSAEVLNEFWTNFLKFAEDSSEERVKKMVESEIFNSLSCGKSLSEYTKLNQTLSGVFPPDKWEREIEDYFTSDEDIRKIKVSFEKNLFALLVTSPNNESAISRLFDFFVQLIETDPSNVFNKYDGVYDALNYFLDSDMIFLNGKIGKFINEIPTLVQESTYQNFAGIMAQYSNSKFFKMNTDAITSLEDFFIVALSFNLPKTIILATMNELDNDIYQQLMKSDSLELELYIEDFMKNYKFDDSGEIFKGNNKFLNQRTITTLYRSAVANGQVEQFCAVLSKLDETFFSTLLLNTDFLSCALYEVSEDTNEKLFKLSLQLAKGNSEIANKLAQVILQHAQVYFSPGAKEKYVTHAVELINGCNDTSQIFFPANAIEVFARYMPAIDYRSSLVSSLSTNTHLLLTDDKPINLKNMQKLIRYALFLDALLDALPERVNNHIVAFITVVSELVTDYNCLSEEPNDLYYDFGHTFFKHGKVNLNFSDIVGNVIQPANGGDAMLTFDIAESNSVYFFYYSRVLYKVLLNSIDTVSSTTLNGLLASVESFVTKTVRDQKSTDKDYLLCAILLLMFNRSNSKDEITKLRTLLASQLIGIREVELVDQEFKSLALLNNLLDIPQADKQFVPIAPQRLNMIFRSILKWLDSDLAYEPSFSTVRLLLLDFFTKLMRFEGVRDMGITAFELSERLLADSLSMCQIDDTLYLLELRSSCLNLYETLSQGVSKNGEEISEYGDEIQENLIELMFLNFNQERNNQVSTLFYQKLYKVISSMELKKLESQYKRIFEVVLNDKDIGSNINQSRLLTTLLGSLVVKTQQDIIIEYELRIQKQTGSDVDGSASDNDVNSKFKLPQKLLQKVTDEVPKEYLEYENKNSFIKYLWYWHLILMYFKDTSYNMRQIFIEQLKEAGLINRMFDFITDQIDLRDTEFWKQVDTKEISEYNIVGNNFSPYKEDIFEECKKLLGHTLYQLFNNVGCLTSIWWLNIKDRTLQNDIEKFVSEFISPILIKNEFDDINSKMDRLTSNDDALTIKLNNITNEVKASYLIDDQKLEISFKLPKNYPLTNIQVNGVSRVGISEQKWKQWIMSTQHVITGMNGSVLDSLELFTKNVHLQFSGFEECAICYSILHAVDRKLPSKTCPTCKNKFHGACLYKWFRSSGNNTCPLCRSEIPFRR", "length": 1562, "header": "sp|Q04781-1|LTN1_YEAST Isoform 1 of E3 ubiquitin-protein ligase listerin OS=Saccharomyces cerevisiae S288C OX=559292 GN=RKR1 PE=1 SV=1 CANONICAL=Q04781-1" }, "locus": { "chromosome": "XIII", "start_pos": 768039, "end_pos": 763354, "strand": "+", "evidence": [ { "database": "Ensembl Transcript", "id": "YMR247C_mRNA", "url": "https://www.ensembl.org/id/YMR247C_mRNA" }, { "database": "Ensembl Peptide", "id": "YMR247C", "url": "https://www.ensembl.org/id/YMR247C" } ] } } ], "glycosylation": [], "phosphorylation": [ { "start_pos": 1221, "end_pos": 1221, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Thr", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" }, { "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" } ], "site_lbl": "Thr1221" }, { "start_pos": 1223, "end_pos": 1223, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" }, { "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": "Q04781", "url": "https://www.yeastgenome.org/locus/Q04781" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1223" }, { "start_pos": 1228, "end_pos": 1228, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" }, { "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" } ], "site_lbl": "Ser1228" }, { "start_pos": 1230, "end_pos": 1230, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" }, { "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": "Q04781", "url": "https://www.yeastgenome.org/locus/Q04781" }, { "database": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ], "site_lbl": "Ser1230" }, { "start_pos": 1236, "end_pos": 1236, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" }, { "database": "PubMed", "id": "19684113", "url": "https://glygen.org/publication/PubMed/19684113" } ], "site_lbl": "Ser1236" }, { "start_pos": 712, "end_pos": 712, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser712" }, { "start_pos": 720, "end_pos": 720, "kinase_uniprot_canonical_ac": "", "kinase_gene_name": "", "residue": "Ser", "comment": "", "evidence": [ { "database": "iPTMnet", "id": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" }, { "database": "PubMed", "id": "19795423", "url": "https://glygen.org/publication/PubMed/19795423" }, { "database": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ], "site_lbl": "Ser720" } ], "glycation": [], "keywords": [ "enzyme" ], "publication": [ { "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": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "14562106", "url": "https://glygen.org/publication/PubMed/14562106" } ] }, { "title": "Identification of Rkr1, a nuclear RING domain protein with functional connections to chromatin modification in Saccharomyces cerevisiae.", "journal": "Mol. Cell. Biol.", "date": "2007", "authors": "Braun Mary A, Costa Patrick J, Crisucci Elia M, Arndt Karen M", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "17283062", "url": "https://glygen.org/publication/PubMed/17283062" } ] }, { "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": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" } ], "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": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" } ], "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": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" } ], "reference": [ { "type": "PubMed", "id": "19823750", "url": "https://glygen.org/publication/PubMed/19823750" } ] }, { "title": "Role of a ribosome-associated E3 ubiquitin ligase in protein quality control.", "journal": "Nature", "date": "2010", "authors": "Bengtson Mario H, Joazeiro Claudio A P", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "20835226", "url": "https://glygen.org/publication/PubMed/20835226" } ] }, { "title": "A ribosome-bound quality control complex triggers degradation of nascent peptides and signals translation stress.", "journal": "Cell", "date": "2012", "authors": "Zhou S., Larson A., Wong D., King D., Inada T., Williams C.C., Frost A., Weissman J.S., Shen P.S., Brandman O., Li G.W., Dunn J.G., Rouskin S., Stewart-Ornstein J., Weibezahn J.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "23178123", "url": "https://glygen.org/publication/PubMed/23178123" } ] }, { "title": "Cdc48-associated complex bound to 60S particles is required for the clearance of aberrant translation products.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2013", "authors": "Yao Y., Mouaikel J., Jacquier A., Namane A., Fromont-Racine M., Saveanu C., Decourty L., Defenouillere Q., Doyen A., Galopier A., Malabat C.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "23479637", "url": "https://glygen.org/publication/PubMed/23479637" } ] }, { "title": "Global analysis of phosphorylation and ubiquitylation cross-talk in protein degradation.", "journal": "Nature methods", "date": "2013-07", "authors": "Swaney Danielle L, Beltrao Pedro, Starita Lea, Guo Ailan, Rush John, Fields Stanley, Krogan Nevan J, Vill\u00e9n Judit", "evidence": [ { "database": "iPTMnet", "id": "Q04781", "url": "http://research.bioinformatics.udel.edu/iptmnet/entry/Q04781" } ], "reference": [ { "type": "PubMed", "id": "23749301", "url": "https://glygen.org/publication/PubMed/23749301" } ] }, { "title": "Translation of CGA codon repeats in yeast involves quality control components and ribosomal protein L1.", "journal": "RNA", "date": "2013", "authors": "Wolf A.S., Grayhack E.J., Brule C.E., Letzring D.P.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "23825054", "url": "https://glygen.org/publication/PubMed/23825054" } ] }, { "title": "Protein quality control systems associated with no-go and nonstop mRNA surveillance in yeast.", "journal": "Genes Cells", "date": "2014", "authors": "Matsuda R., Nomura S., Inada T., Ikeuchi K.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "24261871", "url": "https://glygen.org/publication/PubMed/24261871" } ] }, { "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": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "24374639", "url": "https://glygen.org/publication/PubMed/24374639" } ] }, { "title": "Structural basis for translational surveillance by the large ribosomal subunit-associated protein quality control complex.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2014", "authors": "Webb K., Joazeiro C.A., Bennett E.J., Potter C.S., Carragher B., Lyumkis D., Oliveira dos Passos D., Tahara E.B., Vinterbo S.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "25349383", "url": "https://glygen.org/publication/PubMed/25349383" } ] }, { "title": "Protein synthesis. Rqc2p and 60S ribosomal subunits mediate mRNA-independent elongation of nascent chains.", "journal": "Science", "date": "2015", "authors": "Shen Peter S, Park Joseph, Qin Yidan, Li Xueming, Parsawar Krishna, Larson Matthew H, Cox James, Cheng Yifan, Lambowitz Alan M, Weissman Jonathan S, Brandman Onn, Frost Adam", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "25554787", "url": "https://glygen.org/publication/PubMed/25554787" } ] }, { "title": "Rkr1/Ltn1 ubiquitin ligase-mediated degradation of translationally stalled endoplasmic reticulum proteins.", "journal": "J. Biol. Chem.", "date": "2015", "authors": "Kreft S.G., Sachs N., Rubenstein E.M., Buchanan B.W., Crowder J.J., Fults E.S., Geigges M., Gibson R.T., Schink A.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "26055716", "url": "https://glygen.org/publication/PubMed/26055716" } ] }, { "title": "Failure of RQC machinery causes protein aggregation and proteotoxic stress.", "journal": "Nature", "date": "2016", "authors": "Hartl F.U., Park S.H., Koerner R., Hayer-Hartl M., Choe Y.J., Hassemer T., Vincenz-Donnelly L.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "26934223", "url": "https://glygen.org/publication/PubMed/26934223" } ] }, { "title": "Rqc1 and Ltn1 prevent C-terminal alanine-threonine tail (CAT-tail)-induced protein aggregation by efficient recruitment of Cdc48 on stalled 60S subunits.", "journal": "J. Biol. Chem.", "date": "2016", "authors": "Zhang E., Mouaikel J., Jacquier A., Namane A., Fromont-Racine M., Defenouillere Q.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "27129255", "url": "https://glygen.org/publication/PubMed/27129255" } ] }, { "title": "Structure and function of the yeast listerin (Ltn1) conserved N-terminal domain in binding to stalled 60S ribosomal subunits.", "journal": "Proc. Natl. Acad. Sci. U.S.A.", "date": "2016", "authors": "Doamekpor Selom K, Lee Joong-Won, Hepowit Nathaniel L, Wu Cheng, Charenton Clement, Leonard Marilyn, Bengtson Mario H, Rajashankar Kanagalaghatta R, Sachs Matthew S, Lima Christopher D, Joazeiro Claudio A P", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "27385828", "url": "https://glygen.org/publication/PubMed/27385828" } ] }, { "title": "CAT tails drive degradation of stalled polypeptides on and off the ribosome.", "journal": "Nat. Struct. Mol. Biol.", "date": "2019", "authors": "Brandman O., Sitron C.S.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "31133701", "url": "https://glygen.org/publication/PubMed/31133701" } ] }, { "title": "Molecular basis of eIF5A-dependent CAT tailing in eukaryotic ribosome-associated quality control.", "journal": "Mol. Cell", "date": "2023", "authors": "Tesina Petr, Ebine Shuhei, Buschauer Robert, Thoms Matthias, Matsuo Yoshitaka, Inada Toshifumi, Beckmann Roland", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "36804914", "url": "https://glygen.org/publication/PubMed/36804914" } ] }, { "title": "The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.", "journal": "Nature", "date": "1997", "authors": "Connor R., Gentles S., Pearson D., Bowman S., Hunt S., Barrell B.G., Skelton J., Brown D., Rice P., Odell C., Whitehead S., Badcock K., Chillingworth T., Churcher C.M., Dedman K., Devlin K., Hamlin N., Jagels K., Lye G., Moule S., Rajandream M.A., Walsh S.V.", "evidence": [ { "database": "UniProtKB", "id": "Q04781", "url": "https://www.uniprot.org/uniprot/Q04781" } ], "reference": [ { "type": "PubMed", "id": "9169872", "url": "https://glygen.org/publication/PubMed/9169872" } ] } ], 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"start_pos": 758, "end_pos": 760, "annotation": "n_glycosylation_sequon" }, { "start_pos": 875, "end_pos": 877, "annotation": "n_glycosylation_sequon" }, { "start_pos": 965, "end_pos": 967, "annotation": "n_glycosylation_sequon" } ], "ptm_annotation": [], "interactions": [], "reactions": [ { "id": "R-SCE-983147", "name": "Release of E3 from polyubiquitinated substrate", "equation": "", "summary": "This event has been computationally inferred from an event that has been demonstrated in another species.

The inference is based on the homology mapping from PANTHER. Briefly, reactions for which all involved PhysicalEntities (in input, output and catalyst) have a mapped orthologue/paralogue (for complexes at least 75% of components must have a mapping) are inferred to the other species. High level events are also inferred for these events to allow for easier navigation.

More details and caveats of the event inference in Reactome. For details on PANTHER see also: http://www.pantherdb.org/about.jsp", "cellular_location": "cytosol", "input_participant_list": [], "output_participant_list": [], "enzyme_list": [ "P54860-1", "Q04781-1", "P40034-1", "P19812-1", "P39940-1", "Q04638-1", "Q07963-1", "Q03280-1", "Q12157-1", "P53119-1", "P36113-1", "P40985-1", "P33202-1" ], "evidence": [ { "id": "R-SCE-983147", "database": "Reactome", "url": "https://www.reactome.org/PathwayBrowser/#R-SCE-983147" } ] } ], "reaction_participants": [], "reaction_enzymes": [ { "uniprot_ac": "P19812", "gene_name": "UBR1", "activity": [ { "ec_number": "2.3.2.27", "activity": "S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.", "evidence": [ { "id": "P19812", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprot/P19812" } ] }, { "ec_number": "2.3.2.27", "activity": "", "evidence": [ { "id": "P19812", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprot/P19812" } ] } ] }, { "uniprot_ac": "P33202", "gene_name": "UFD4", "activity": [ { "ec_number": "2.3.2.-", "activity": "", "evidence": [ { "id": "P33202", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprot/P33202" } ] }, { "ec_number": "2.3.2.26", "activity": "S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.", "evidence": [ { "id": "P33202", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprot/P33202" } ] } ] }, { "uniprot_ac": "P36113", "gene_name": "HEL1", "activity": [ { "ec_number": "2.3.2.31", "activity": "[E2 ubiquitin-conjugating enzyme]-S-ubiquitinyl-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-N(6)-ubiquitinyl-L-lysine.", "evidence": [ { "id": "P36113", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprot/P36113" } ] }, { "ec_number": "2.3.2.31", "activity": "", "evidence": [ { "id": "P36113", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprot/P36113" } ] } ] }, { "uniprot_ac": "P39940", "gene_name": "RSP5", "activity": [ { "ec_number": "2.3.2.26", "activity": "S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N(6)-ubiquitinyl-[acceptor protein]-L-lysine.", "evidence": [ { "id": "P39940", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprot/P39940" } ] }, { "ec_number": "2.3.2.26", "activity": "", "evidence": [ { "id": "P39940", "database": "UniProtKB", "url": "https://www.uniprot.org/uniprot/P39940" } ] } ] }, { "uniprot_ac": "P40034", "gene_name": "JHD1", "activity": [ { "ec_number": "1.14.11.27", "activity": "2 2-oxoglutarate + N(6),N(6)-dimethyl-L-lysyl(36)-[histone H3] + 2 O2 = 2 CO2 + 2 formaldehyde + L-lysyl(36)-[histone H3] + 2 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