{"entryType":"UniProtKB reviewed (Swiss-Prot)","primaryAccession":"Q3T1H6","uniProtkbId":"UBE3D_RAT","entryAudit":{"firstPublicDate":"2007-11-13","lastAnnotationUpdateDate":"2026-09-02","lastSequenceUpdateDate":"2005-10-11","entryVersion":96,"sequenceVersion":1},"annotationScore":4.0,"organism":{"scientificName":"Rattus norvegicus","commonName":"Rat","taxonId":10116,"lineage":["Eukaryota","Metazoa","Chordata","Craniata","Vertebrata","Euteleostomi","Mammalia","Eutheria","Euarchontoglires","Glires","Rodentia","Myomorpha","Muroidea","Muridae","Murinae","Rattus"]},"proteinExistence":"2: Evidence at transcript level","proteinDescription":{"recommendedName":{"fullName":{"value":"E3 ubiquitin-protein ligase E3D"},"ecNumbers":[{"value":"2.3.2.26"}]},"alternativeNames":[{"fullName":{"evidences":[{"evidenceCode":"ECO:0000305"}],"value":"HECT-type E3 ubiquitin transferase E3D"}},{"fullName":{"value":"UbcH10-binding protein with a HECT-like domain"}},{"fullName":{"value":"Ubiquitin-conjugating enzyme E2C-binding protein"}}]},"genes":[{"geneName":{"value":"Ube3d"},"synonyms":[{"value":"H10bh"},{"value":"Ube2cbp"}]}],"comments":[{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}],"value":"E3 ubiquitin-protein ligase which accepts ubiquitin from specific E2 ubiquitin-conjugating enzymes, and transfers it to substrates, generally promoting their degradation by the proteasome. Independently of its E3 ubiquitin-protein ligase activity, acts as an inhibitor of CPSF3 endonuclease activity by blocking CPSF3 active site"}],"commentType":"FUNCTION"},{"commentType":"CATALYTIC ACTIVITY","reaction":{"name":"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.","ecNumber":"2.3.2.26","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}]}},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}],"value":"Protein modification; protein ubiquitination"}],"commentType":"PATHWAY"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}],"value":"Interacts with UBE2C/UbcH10 (E2 ubiquitin-conjugating enzyme). In vitro, interacts with cyclin-B"}],"commentType":"SUBUNIT"},{"commentType":"SUBCELLULAR LOCATION","subcellularLocations":[{"location":{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}],"value":"Cytoplasm","id":"SL-0086"}}]},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}],"value":"The C-terminal half (AA 188-389) is able to bind cyclin-B and shows a self-ubiquitination activity (mono-, poly, or multi-ubiquitination) in a HECT-like sequence dependent manner"}],"commentType":"DOMAIN"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}],"value":"The BRAT1-like motif mediates inhibition of the endonuclease activity of CPSF3 by forming hydrogen bond and hydrophobic interactions with the active site of CPSF3: Cys-144 coordinates one of the two active site zinc ions of CPSF3"}],"commentType":"DOMAIN"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}],"value":"Ubiquitinated by UBCH10 (E2 ubiquitin-conjugating enzyme)"}],"commentType":"PTM"}],"features":[{"type":"Initiator methionine","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":1,"modifier":"EXACT"}},"description":"Removed","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}]},{"type":"Chain","location":{"start":{"value":2,"modifier":"EXACT"},"end":{"value":370,"modifier":"EXACT"}},"description":"E3 ubiquitin-protein ligase E3D","featureId":"PRO_0000311193"},{"type":"Region","location":{"start":{"value":214,"modifier":"EXACT"},"end":{"value":236,"modifier":"EXACT"}},"description":"Interaction with UBE2C","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}]},{"type":"Region","location":{"start":{"value":332,"modifier":"EXACT"},"end":{"value":368,"modifier":"EXACT"}},"description":"HECT-like","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}]},{"type":"Motif","location":{"start":{"value":129,"modifier":"EXACT"},"end":{"value":159,"modifier":"EXACT"}},"description":"BRAT1-like motif","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}]},{"type":"Binding site","location":{"start":{"value":144,"modifier":"EXACT"},"end":{"value":144,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105"}},{"type":"Modified residue","location":{"start":{"value":2,"modifier":"EXACT"},"end":{"value":2,"modifier":"EXACT"}},"description":"N-acetylalanine","evidences":[{"evidenceCode":"ECO:0000250","source":"UniProtKB","id":"Q7Z6J8"}]}],"keywords":[{"id":"KW-0007","category":"PTM","name":"Acetylation"},{"id":"KW-0963","category":"Cellular component","name":"Cytoplasm"},{"id":"KW-0479","category":"Ligand","name":"Metal-binding"},{"id":"KW-1185","category":"Technical term","name":"Reference proteome"},{"id":"KW-0808","category":"Molecular function","name":"Transferase"},{"id":"KW-0832","category":"PTM","name":"Ubl conjugation"},{"id":"KW-0833","category":"Biological process","name":"Ubl conjugation pathway"},{"id":"KW-0862","category":"Ligand","name":"Zinc"}],"references":[{"referenceNumber":1,"citation":{"id":"15489334","citationType":"journal article","authoringGroup":["The MGC Project Team"],"citationCrossReferences":[{"database":"PubMed","id":"15489334"},{"database":"DOI","id":"10.1101/gr.2596504"}],"title":"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).","publicationDate":"2004","journal":"Genome Res.","firstPage":"2121","lastPage":"2127","volume":"14"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]"],"referenceComments":[{"value":"Prostate","type":"TISSUE"}]}],"uniProtKBCrossReferences":[{"database":"EMBL","id":"BC101916","properties":[{"key":"ProteinId","value":"AAI01917.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"mRNA"}]},{"database":"RefSeq","id":"NP_001034699.1","properties":[{"key":"NucleotideSequenceId","value":"NM_001039610.2"}]},{"database":"AlphaFoldDB","id":"Q3T1H6","properties":[{"key":"Description","value":"-"}]},{"database":"FunCoup","id":"Q3T1H6","properties":[{"key":"Number of interactors","value":"874"}]},{"database":"STRING","id":"10116.ENSRNOP00000014600","properties":[{"key":"Description","value":"-"}]},{"database":"PhosphoSitePlus","id":"Q3T1H6","properties":[{"key":"Description","value":"-"}]},{"database":"PaxDb","id":"10116-ENSRNOP00000014600","properties":[{"key":"Description","value":"-"}]},{"database":"Ensembl","id":"ENSRNOT00000014600.7","properties":[{"key":"ProteinId","value":"ENSRNOP00000014600.4"},{"key":"GeneId","value":"ENSRNOG00000010802.7"}]},{"database":"Ensembl","id":"ENSRNOT00055007224","properties":[{"key":"ProteinId","value":"ENSRNOP00055005389"},{"key":"GeneId","value":"ENSRNOG00055004562"}]},{"database":"Ensembl","id":"ENSRNOT00060019391","properties":[{"key":"ProteinId","value":"ENSRNOP00060015209"},{"key":"GeneId","value":"ENSRNOG00060011464"}]},{"database":"Ensembl","id":"ENSRNOT00065020286","properties":[{"key":"ProteinId","value":"ENSRNOP00065015584"},{"key":"GeneId","value":"ENSRNOG00065012464"}]},{"database":"GeneID","id":"315863","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"rno:315863","properties":[{"key":"Description","value":"-"}]},{"database":"UCSC","id":"RGD:1306773","properties":[{"key":"OrganismName","value":"rat"}]},{"database":"AGR","id":"RGD:1306773","properties":[{"key":"Description","value":"-"}]},{"database":"CTD","id":"90025","properties":[{"key":"Description","value":"-"}]},{"database":"RGD","id":"1306773","properties":[{"key":"GeneName","value":"Ube3d"}]},{"database":"eggNOG","id":"KOG4784","properties":[{"key":"ToxonomicScope","value":"Eukaryota"}]},{"database":"GeneTree","id":"ENSGT00390000003986","properties":[{"key":"Description","value":"-"}]},{"database":"InParanoid","id":"Q3T1H6","properties":[{"key":"Description","value":"-"}]},{"database":"OrthoDB","id":"66510at2759","properties":[{"key":"Description","value":"-"}]},{"database":"PhylomeDB","id":"Q3T1H6","properties":[{"key":"Description","value":"-"}]},{"database":"Reactome","id":"R-RNO-983168","properties":[{"key":"PathwayName","value":"Antigen processing: Ubiquitination & Proteasome degradation"}]},{"database":"UniPathway","id":"UPA00143","properties":[{"key":"RectionId","value":"-"}]},{"database":"PRO","id":"PR:Q3T1H6","properties":[{"key":"Description","value":"-"}]},{"database":"Proteomes","id":"UP000002494","properties":[{"key":"Component","value":"Chromosome 8"}]},{"database":"Bgee","id":"ENSRNOG00000010802","properties":[{"key":"ExpressionPatterns","value":"Expressed in quadriceps femoris and 18 other cell types or tissues"}]},{"database":"ExpressionAtlas","id":"Q3T1H6","properties":[{"key":"ExpressionPatterns","value":"baseline and differential"}]},{"database":"GO","id":"GO:0005737","properties":[{"key":"GoTerm","value":"C:cytoplasm"},{"key":"GoEvidenceType","value":"ISS:UniProtKB"}]},{"database":"GO","id":"GO:0005829","properties":[{"key":"GoTerm","value":"C:cytosol"},{"key":"GoEvidenceType","value":"ISO:RGD"}]},{"database":"GO","id":"GO:0005634","properties":[{"key":"GoTerm","value":"C:nucleus"},{"key":"GoEvidenceType","value":"IBA:GO_Central"}]},{"database":"GO","id":"GO:0000151","properties":[{"key":"GoTerm","value":"C:ubiquitin ligase complex"},{"key":"GoEvidenceType","value":"ISO:RGD"}]},{"database":"GO","id":"GO:0030332","properties":[{"key":"GoTerm","value":"F:cyclin binding"},{"key":"GoEvidenceType","value":"ISO:RGD"}]},{"database":"GO","id":"GO:0008428","properties":[{"key":"GoTerm","value":"F:ribonuclease inhibitor activity"},{"key":"GoEvidenceType","value":"ISO:RGD"}]},{"database":"GO","id":"GO:0031624","properties":[{"key":"GoTerm","value":"F:ubiquitin conjugating enzyme binding"},{"key":"GoEvidenceType","value":"IBA:GO_Central"}]},{"database":"GO","id":"GO:0061630","properties":[{"key":"GoTerm","value":"F:ubiquitin protein ligase activity"},{"key":"GoEvidenceType","value":"ISS:UniProtKB"}]},{"database":"GO","id":"GO:0044390","properties":[{"key":"GoTerm","value":"F:ubiquitin-like protein conjugating enzyme binding"},{"key":"GoEvidenceType","value":"ISO:RGD"}]},{"database":"GO","id":"GO:0043161","properties":[{"key":"GoTerm","value":"P:proteasome-mediated ubiquitin-dependent protein catabolic process"},{"key":"GoEvidenceType","value":"IBA:GO_Central"}]},{"database":"GO","id":"GO:0051865","properties":[{"key":"GoTerm","value":"P:protein autoubiquitination"},{"key":"GoEvidenceType","value":"ISO:RGD"}]},{"database":"GO","id":"GO:0006513","properties":[{"key":"GoTerm","value":"P:protein monoubiquitination"},{"key":"GoEvidenceType","value":"ISO:RGD"}]},{"database":"GO","id":"GO:0000209","properties":[{"key":"GoTerm","value":"P:protein polyubiquitination"},{"key":"GoEvidenceType","value":"ISO:RGD"}]},{"database":"InterPro","id":"IPR019193","properties":[{"key":"EntryName","value":"UBQ-conj_enz_E2-bd_prot"}]},{"database":"PANTHER","id":"PTHR31531:SF2","properties":[{"key":"EntryName","value":"E3 UBIQUITIN-PROTEIN LIGASE E3D"},{"key":"MatchStatus","value":"1"}]},{"database":"PANTHER","id":"PTHR31531","properties":[{"key":"EntryName","value":"E3 UBIQUITIN-PROTEIN LIGASE E3D FAMILY MEMBER"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF09814","properties":[{"key":"EntryName","value":"HECT_2"},{"key":"MatchStatus","value":"1"}]}],"sequence":{"value":"MAVVEAETRVFLEVRRRLQSALLILGEPDEGGMNLDISVTPTSLLMRSPDGCTEIRLPAGVRLAPSSCGGLQYISGDGLHLRLRAQAESSPQPISGFNQSLQAQECCSFYCQSCGEVTIKDRKLLRVLPLPSENWSALVGEWCCHPDPFANKPLHPRENDCFVGDSFFLVNSRSDLEQEPKANTKVICKRCKVMLGETVSSETTKFYMTEVIVQPSEGSFPNIPRSQFVQSVIARCLVELCTARSTFRFTIQGQDGKVYILLWVLNSDSLVMEPLSSSGCIRKFPLLEDSLEADSGSAWNAIKVLYQPCIKSRNKELASSWEGDISVHPLTLPSTTCLELLLILSRNNASLPLSLRQMNSFQLWCSHCKT","length":370,"molWeight":41056,"crc64":"FF97D69330D51B83","md5":"70C0373F23F79AA7BEA5ED5E6326F372"},"extraAttributes":{"countByCommentType":{"FUNCTION":1,"CATALYTIC ACTIVITY":1,"PATHWAY":1,"SUBUNIT":1,"SUBCELLULAR LOCATION":1,"DOMAIN":2,"PTM":1},"countByFeatureType":{"Initiator methionine":1,"Chain":1,"Region":2,"Motif":1,"Binding site":1,"Modified residue":1},"uniParcId":"UPI00005B61B3"}}