{"entryType":"UniProtKB reviewed (Swiss-Prot)","primaryAccession":"P34220","secondaryAccessions":["D6VPU5","Q6B2V4"],"uniProtkbId":"YBF5_YEAST","entryAudit":{"firstPublicDate":"1994-02-01","lastAnnotationUpdateDate":"2026-09-02","lastSequenceUpdateDate":"1994-02-01","entryVersion":169,"sequenceVersion":1},"annotationScore":4.0,"organism":{"scientificName":"Saccharomyces cerevisiae (strain ATCC 204508 / S288c)","commonName":"Baker's yeast","taxonId":559292,"lineage":["Eukaryota","Fungi","Dikarya","Ascomycota","Saccharomycotina","Saccharomycetes","Saccharomycetales","Saccharomycetaceae","Saccharomyces"]},"proteinExistence":"1: Evidence at protein level","proteinDescription":{"recommendedName":{"fullName":{"value":"Deoxyribonuclease Tat-D"},"ecNumbers":[{"value":"3.1.21.-"}]}},"genes":[{"orderedLocusNames":[{"value":"YBL055C"}],"orfNames":[{"value":"YBL0511"},{"value":"YBL0512"}]}],"comments":[{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"15657035"}],"value":"Has both endo- and exonuclease activities. Incises double-stranded DNA without obvious specificity via its endonuclease activity and excises the DNA from the 3'-to 5'-end by its exonuclease activity. May have a role in apoptosis"}],"commentType":"FUNCTION"},{"commentType":"COFACTOR","cofactors":[{"name":"Mg(2+)","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"15657035"}],"cofactorCrossReference":{"database":"ChEBI","id":"CHEBI:18420"}}],"note":{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"15657035"}],"value":"Divalent metal cations. Has optimal activity with Mg(2+)."}]}},{"commentType":"BIOPHYSICOCHEMICAL PROPERTIES","phDependence":{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"15657035"}],"value":"Optimum pH is 5."}]},"temperatureDependence":{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"15657035"}],"value":"Optimum temperature is 30 degrees Celsius."}]}},{"commentType":"SUBCELLULAR LOCATION","subcellularLocations":[{"location":{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"14562095"}],"value":"Cytoplasm","id":"SL-0086"}}]},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"14562106"}],"value":"Present with 1460 molecules/cell in log phase SD medium"}],"commentType":"MISCELLANEOUS"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000305"}],"value":"Belongs to the metallo-dependent hydrolases superfamily. TatD-type hydrolase family"}],"commentType":"SIMILARITY"}],"features":[{"type":"Chain","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":418,"modifier":"EXACT"}},"description":"Deoxyribonuclease Tat-D","featureId":"PRO_0000201994"},{"type":"Binding site","location":{"start":{"value":185,"modifier":"EXACT"},"end":{"value":185,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:60240"}],"evidences":[{"evidenceCode":"ECO:0000250"}],"ligand":{"name":"a divalent metal cation","id":"ChEBI:CHEBI:60240","label":"1"}},{"type":"Binding site","location":{"start":{"value":185,"modifier":"EXACT"},"end":{"value":185,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:60240"}],"evidences":[{"evidenceCode":"ECO:0000250"}],"ligand":{"name":"a divalent metal cation","id":"ChEBI:CHEBI:60240","label":"2"}},{"type":"Binding site","location":{"start":{"value":226,"modifier":"EXACT"},"end":{"value":226,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:60240"}],"evidences":[{"evidenceCode":"ECO:0000250"}],"ligand":{"name":"a divalent metal cation","id":"ChEBI:CHEBI:60240","label":"2"}},{"type":"Binding site","location":{"start":{"value":277,"modifier":"EXACT"},"end":{"value":277,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:60240"}],"evidences":[{"evidenceCode":"ECO:0000250"}],"ligand":{"name":"a divalent metal cation","id":"ChEBI:CHEBI:60240","label":"2"}},{"type":"Binding site","location":{"start":{"value":327,"modifier":"EXACT"},"end":{"value":327,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:60240"}],"evidences":[{"evidenceCode":"ECO:0000250"}],"ligand":{"name":"a divalent metal cation","id":"ChEBI:CHEBI:60240","label":"1"}},{"type":"Mutagenesis","location":{"start":{"value":185,"modifier":"EXACT"},"end":{"value":185,"modifier":"EXACT"}},"description":"Reduces enzymatic activities by 50%.","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"15657035"}],"alternativeSequence":{"originalSequence":"E","alternativeSequences":["A"]}},{"type":"Mutagenesis","location":{"start":{"value":325,"modifier":"EXACT"},"end":{"value":325,"modifier":"EXACT"}},"description":"Reduces enzymatic activities by 50%.","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"15657035"}],"alternativeSequence":{"originalSequence":"E","alternativeSequences":["A"]}},{"type":"Mutagenesis","location":{"start":{"value":327,"modifier":"EXACT"},"end":{"value":327,"modifier":"EXACT"}},"description":"Reduces enzymatic activities by almost 95%.","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"15657035"}],"alternativeSequence":{"originalSequence":"D","alternativeSequences":["A"]}},{"type":"Sequence conflict","location":{"start":{"value":278,"modifier":"EXACT"},"end":{"value":278,"modifier":"EXACT"}},"description":"in Ref. 4; AAT92645","evidences":[{"evidenceCode":"ECO:0000305"}],"alternativeSequence":{"originalSequence":"S","alternativeSequences":["P"]}}],"keywords":[{"id":"KW-0963","category":"Cellular component","name":"Cytoplasm"},{"id":"KW-0378","category":"Molecular function","name":"Hydrolase"},{"id":"KW-0479","category":"Ligand","name":"Metal-binding"},{"id":"KW-0540","category":"Molecular function","name":"Nuclease"},{"id":"KW-1185","category":"Technical term","name":"Reference proteome"}],"references":[{"referenceNumber":1,"citation":{"id":"8154187","citationType":"journal article","authors":["Scherens B.","el Bakkoury M.","Vierendeels F.","Dubois E.","Messenguy F."],"citationCrossReferences":[{"database":"PubMed","id":"8154187"},{"database":"DOI","id":"10.1002/yea.320091210"}],"title":"Sequencing and functional analysis of a 32,560 bp segment on the left arm of yeast chromosome II. Identification of 26 open reading frames, including the KIP1 and SEC17 genes.","publicationDate":"1993","journal":"Yeast","firstPage":"1355","lastPage":"1371","volume":"9"},"referencePositions":["NUCLEOTIDE SEQUENCE [GENOMIC DNA]"],"referenceComments":[{"value":"ATCC 204508 / S288c","type":"STRAIN"}]},{"referenceNumber":2,"citation":{"id":"7813418","citationType":"journal article","authors":["Feldmann H.","Aigle M.","Aljinovic G.","Andre B.","Baclet M.C.","Barthe C.","Baur A.","Becam A.-M.","Biteau N.","Boles E.","Brandt T.","Brendel M.","Brueckner M.","Bussereau F.","Christiansen C.","Contreras R.","Crouzet M.","Cziepluch C.","Demolis N.","Delaveau T.","Doignon F.","Domdey H.","Duesterhus S.","Dubois E.","Dujon B.","El Bakkoury M.","Entian K.-D.","Feuermann M.","Fiers W.","Fobo G.M.","Fritz C.","Gassenhuber J.","Glansdorff N.","Goffeau A.","Grivell L.A.","de Haan M.","Hein C.","Herbert C.J.","Hollenberg C.P.","Holmstroem K.","Jacq C.","Jacquet M.","Jauniaux J.-C.","Jonniaux J.-L.","Kallesoee T.","Kiesau P.","Kirchrath L.","Koetter P.","Korol S.","Liebl S.","Logghe M.","Lohan A.J.E.","Louis E.J.","Li Z.Y.","Maat M.J.","Mallet L.","Mannhaupt G.","Messenguy F.","Miosga T.","Molemans F.","Mueller S.","Nasr F.","Obermaier B.","Perea J.","Pierard A.","Piravandi E.","Pohl F.M.","Pohl T.M.","Potier S.","Proft M.","Purnelle B.","Ramezani Rad M.","Rieger M.","Rose M.","Schaaff-Gerstenschlaeger I.","Scherens B.","Schwarzlose C.","Skala J.","Slonimski P.P.","Smits P.H.M.","Souciet J.-L.","Steensma H.Y.","Stucka R.","Urrestarazu L.A.","van der Aart Q.J.M.","Van Dyck L.","Vassarotti A.","Vetter I.","Vierendeels F.","Vissers S.","Wagner G.","de Wergifosse P.","Wolfe K.H.","Zagulski M.","Zimmermann F.K.","Mewes H.-W.","Kleine K."],"citationCrossReferences":[{"database":"PubMed","id":"7813418"},{"database":"DOI","id":"10.1002/j.1460-2075.1994.tb06923.x"}],"title":"Complete DNA sequence of yeast chromosome II.","publicationDate":"1994","journal":"EMBO J.","firstPage":"5795","lastPage":"5809","volume":"13"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]"],"referenceComments":[{"value":"ATCC 204508 / S288c","type":"STRAIN"}]},{"referenceNumber":3,"citation":{"id":"24374639","citationType":"journal article","authors":["Engel S.R.","Dietrich F.S.","Fisk D.G.","Binkley G.","Balakrishnan R.","Costanzo M.C.","Dwight S.S.","Hitz B.C.","Karra K.","Nash R.S.","Weng S.","Wong E.D.","Lloyd P.","Skrzypek M.S.","Miyasato S.R.","Simison M.","Cherry J.M."],"citationCrossReferences":[{"database":"PubMed","id":"24374639"},{"database":"DOI","id":"10.1534/g3.113.008995"}],"title":"The reference genome sequence of Saccharomyces cerevisiae: Then and now.","publicationDate":"2014","journal":"G3 (Bethesda)","firstPage":"389","lastPage":"398","volume":"4"},"referencePositions":["GENOME REANNOTATION"],"referenceComments":[{"value":"ATCC 204508 / S288c","type":"STRAIN"}]},{"referenceNumber":4,"citation":{"id":"17322287","citationType":"journal article","authors":["Hu Y.","Rolfs A.","Bhullar B.","Murthy T.V.S.","Zhu C.","Berger M.F.","Camargo A.A.","Kelley F.","McCarron S.","Jepson D.","Richardson A.","Raphael J.","Moreira D.","Taycher E.","Zuo D.","Mohr S.","Kane M.F.","Williamson J.","Simpson A.J.G.","Bulyk M.L.","Harlow E.","Marsischky G.","Kolodner R.D.","LaBaer J."],"citationCrossReferences":[{"database":"PubMed","id":"17322287"},{"database":"DOI","id":"10.1101/gr.6037607"}],"title":"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae.","publicationDate":"2007","journal":"Genome Res.","firstPage":"536","lastPage":"543","volume":"17"},"referencePositions":["NUCLEOTIDE SEQUENCE [GENOMIC DNA]"],"referenceComments":[{"value":"ATCC 204508 / S288c","type":"STRAIN"}]},{"referenceNumber":5,"citation":{"id":"14562095","citationType":"journal article","authors":["Huh W.-K.","Falvo J.V.","Gerke L.C.","Carroll A.S.","Howson R.W.","Weissman J.S.","O'Shea E.K."],"citationCrossReferences":[{"database":"PubMed","id":"14562095"},{"database":"DOI","id":"10.1038/nature02026"}],"title":"Global analysis of protein localization in budding yeast.","publicationDate":"2003","journal":"Nature","firstPage":"686","lastPage":"691","volume":"425"},"referencePositions":["SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS]"]},{"referenceNumber":6,"citation":{"id":"14562106","citationType":"journal article","authors":["Ghaemmaghami S.","Huh W.-K.","Bower K.","Howson R.W.","Belle A.","Dephoure N.","O'Shea E.K.","Weissman J.S."],"citationCrossReferences":[{"database":"PubMed","id":"14562106"},{"database":"DOI","id":"10.1038/nature02046"}],"title":"Global analysis of protein expression in yeast.","publicationDate":"2003","journal":"Nature","firstPage":"737","lastPage":"741","volume":"425"},"referencePositions":["LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS]"]},{"referenceNumber":7,"citation":{"id":"15657035","citationType":"journal article","authors":["Qiu J.","Yoon J.H.","Shen B."],"citationCrossReferences":[{"database":"PubMed","id":"15657035"},{"database":"DOI","id":"10.1074/jbc.m413547200"}],"title":"Search for apoptotic nucleases in yeast: role of Tat-D nuclease in apoptotic DNA degradation.","publicationDate":"2005","journal":"J. Biol. Chem.","firstPage":"15370","lastPage":"15379","volume":"280"},"referencePositions":["FUNCTION","COFACTOR","BIOPHYSICOCHEMICAL PROPERTIES","MUTAGENESIS OF GLU-185; GLU-325 AND ASP-327"]}],"uniProtKBCrossReferences":[{"database":"EMBL","id":"Z23261","properties":[{"key":"ProteinId","value":"CAA80792.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"Z35816","properties":[{"key":"ProteinId","value":"CAA84875.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"AY692626","properties":[{"key":"ProteinId","value":"AAT92645.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"BK006936","properties":[{"key":"ProteinId","value":"DAA07065.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"PIR","id":"S39833","properties":[{"key":"EntryName","value":"S39833"}]},{"database":"RefSeq","id":"NP_009498.1","properties":[{"key":"NucleotideSequenceId","value":"NM_001178295.1"}]},{"database":"AlphaFoldDB","id":"P34220","properties":[{"key":"Description","value":"-"}]},{"database":"SMR","id":"P34220","properties":[{"key":"Description","value":"-"}]},{"database":"BioGRID","id":"32644","properties":[{"key":"Interactions","value":"74"}]},{"database":"FunCoup","id":"P34220","properties":[{"key":"Number of interactors","value":"710"}]},{"database":"IntAct","id":"P34220","properties":[{"key":"Interactions","value":"2"}]},{"database":"MINT","id":"P34220","properties":[{"key":"Description","value":"-"}]},{"database":"STRING","id":"4932.YBL055C","properties":[{"key":"Description","value":"-"}]},{"database":"iPTMnet","id":"P34220","properties":[{"key":"Description","value":"-"}]},{"database":"PaxDb","id":"4932-YBL055C","properties":[{"key":"Description","value":"-"}]},{"database":"PeptideAtlas","id":"P34220","properties":[{"key":"Description","value":"-"}]},{"database":"TopDownProteomics","id":"P34220","properties":[{"key":"Description","value":"-"}]},{"database":"EnsemblFungi","id":"YBL055C_mRNA","properties":[{"key":"ProteinId","value":"YBL055C"},{"key":"GeneId","value":"YBL055C"}]},{"database":"GeneID","id":"852225","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"sce:YBL055C","properties":[{"key":"Description","value":"-"}]},{"database":"AGR","id":"SGD:S000000151","properties":[{"key":"Description","value":"-"}]},{"database":"SGD","id":"S000000151","properties":[{"key":"GeneName","value":"YBL055C"}]},{"database":"VEuPathDB","id":"FungiDB:YBL055C","properties":[{"key":"Description","value":"-"}]},{"database":"eggNOG","id":"KOG3020","properties":[{"key":"ToxonomicScope","value":"Eukaryota"}]},{"database":"HOGENOM","id":"CLU_031506_1_0_1","properties":[{"key":"Description","value":"-"}]},{"database":"InParanoid","id":"P34220","properties":[{"key":"Description","value":"-"}]},{"database":"OMA","id":"CSDIFFE","properties":[{"key":"Fingerprint","value":"-"}]},{"database":"OrthoDB","id":"6079689at2759","properties":[{"key":"Description","value":"-"}]},{"database":"BioCyc","id":"YEAST:G3O-28953-MONOMER","properties":[{"key":"Description","value":"-"}]},{"database":"BioGRID-ORCS","id":"852225","properties":[{"key":"hits","value":"8 hits in 10 CRISPR screens"}]},{"database":"PRO","id":"PR:P34220","properties":[{"key":"Description","value":"-"}]},{"database":"Proteomes","id":"UP000002311","properties":[{"key":"Component","value":"Chromosome II"}]},{"database":"RNAct","id":"P34220","properties":[{"key":"moleculeType","value":"protein"}]},{"database":"GO","id":"GO:0005737","properties":[{"key":"GoTerm","value":"C:cytoplasm"},{"key":"GoEvidenceType","value":"HDA:SGD"}],"evidences":[{"evidenceCode":"ECO:0007005","source":"PubMed","id":"14562095"}]},{"database":"GO","id":"GO:0008296","properties":[{"key":"GoTerm","value":"F:3'-5'-DNA exonuclease activity"},{"key":"GoEvidenceType","value":"IDA:SGD"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"15657035"}]},{"database":"GO","id":"GO:0004519","properties":[{"key":"GoTerm","value":"F:endonuclease activity"},{"key":"GoEvidenceType","value":"IDA:SGD"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"15657035"}]},{"database":"GO","id":"GO:0006309","properties":[{"key":"GoTerm","value":"P:apoptotic DNA fragmentation"},{"key":"GoEvidenceType","value":"IMP:SGD"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"15657035"}]},{"database":"GO","id":"GO:0034599","properties":[{"key":"GoTerm","value":"P:cellular response to oxidative stress"},{"key":"GoEvidenceType","value":"IMP:SGD"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"15657035"}]},{"database":"CDD","id":"cd01310","properties":[{"key":"EntryName","value":"TatD_DNAse"},{"key":"MatchStatus","value":"1"}]},{"database":"FunFam","id":"3.20.20.140:FF:000119","properties":[{"key":"EntryName","value":"Deoxyribonuclease Tat-D"},{"key":"MatchStatus","value":"1"}]},{"database":"Gene3D","id":"3.20.20.140","properties":[{"key":"EntryName","value":"Metal-dependent hydrolases"},{"key":"MatchStatus","value":"1"}]},{"database":"InterPro","id":"IPR018228","properties":[{"key":"EntryName","value":"DNase_TatD-rel_CS"}]},{"database":"InterPro","id":"IPR032466","properties":[{"key":"EntryName","value":"Metal_Hydrolase"}]},{"database":"InterPro","id":"IPR001130","properties":[{"key":"EntryName","value":"TatD-like"}]},{"database":"InterPro","id":"IPR050891","properties":[{"key":"EntryName","value":"TatD-type_Hydrolase"}]},{"database":"PANTHER","id":"PTHR10060:SF15","properties":[{"key":"EntryName","value":"DEOXYRIBONUCLEASE TATDN1"},{"key":"MatchStatus","value":"1"}]},{"database":"PANTHER","id":"PTHR10060","properties":[{"key":"EntryName","value":"TATD FAMILY DEOXYRIBONUCLEASE"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF01026","properties":[{"key":"EntryName","value":"TatD_DNase"},{"key":"MatchStatus","value":"1"}]},{"database":"SUPFAM","id":"SSF51556","properties":[{"key":"EntryName","value":"Metallo-dependent hydrolases"},{"key":"MatchStatus","value":"1"}]},{"database":"PROSITE","id":"PS01090","properties":[{"key":"EntryName","value":"TATD_2"},{"key":"MatchStatus","value":"1"}]},{"database":"PROSITE","id":"PS01091","properties":[{"key":"EntryName","value":"TATD_3"},{"key":"MatchStatus","value":"1"}]}],"sequence":{"value":"MWGILLKSSNKSCSRLWKPILTQYYSMTSTATDSPLKYYDIGLNLTDPMFHGIYNGKQYHPADYVKLLERAAQRHVKNALVTGSSIAESQSAIELVSSVKDLSPLKLYHTIGVHPCCVNEFADASQGDKASASIDNPSMDEAYNESLYAKVISNPSFAQGKLKELYDLMNQQAKPHDTSFRSIGEIGLDYDRFHYSSKEMQKVFFEEQLKISCLNDKLSSYPLFLHMRSACDDFVQILERFIAGFTDERDTFQLQKLGASSSSGFYKFHPDRKLVVHSFTGSAIDLQKLLNLSPNIFIGVNGCSLRTEENLAVVKQIPTERLLLETDAPWCEIKRTHASFQYLAKYQEVRDFEYPAFKSVKKNKLADKLNAEELYMVKGRNEPCNMEQVAIVVSEVKDVDLATLIDTTWKTTCKIFGE","length":418,"molWeight":47390,"crc64":"F1107C1B8E94CAD1","md5":"F0BD0C005C119C87B7402513F543FF82"},"extraAttributes":{"countByCommentType":{"FUNCTION":1,"COFACTOR":1,"BIOPHYSICOCHEMICAL PROPERTIES":1,"SUBCELLULAR LOCATION":1,"MISCELLANEOUS":1,"SIMILARITY":1},"countByFeatureType":{"Chain":1,"Binding site":5,"Mutagenesis":3,"Sequence conflict":1},"uniParcId":"UPI000013A311"}}