{"entryType":"UniProtKB reviewed (Swiss-Prot)","primaryAccession":"Q9YE60","uniProtkbId":"AGOG_AERPE","entryAudit":{"firstPublicDate":"2006-01-10","lastAnnotationUpdateDate":"2025-06-18","lastSequenceUpdateDate":"2007-06-26","entryVersion":96,"sequenceVersion":2},"annotationScore":3.0,"organism":{"scientificName":"Aeropyrum pernix (strain ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1)","taxonId":272557,"lineage":["Archaea","Thermoproteota","Thermoprotei","Desulfurococcales","Desulfurococcaceae","Aeropyrum"]},"proteinExistence":"3: Inferred from homology","proteinDescription":{"recommendedName":{"fullName":{"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"value":"N-glycosylase/DNA lyase"}},"alternativeNames":[{"fullName":{"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"value":"8-oxoguanine DNA glycosylase"},"ecNumbers":[{"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"value":"3.2.2.-"}]},{"fullName":{"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"value":"AGOG"}},{"fullName":{"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"value":"DNA-(apurinic or apyrimidinic site) lyase"},"shortNames":[{"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"value":"AP lyase"}],"ecNumbers":[{"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"value":"4.2.99.18"}]}]},"genes":[{"orderedLocusNames":[{"value":"APE_0710.1"}]}],"comments":[{"texts":[{"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"value":"DNA repair enzyme that is part of the base excision repair (BER) pathway; protects from oxidative damage by removing the major product of DNA oxidation, 8-oxoguanine (GO), from single- and double-stranded DNA substrates"}],"commentType":"FUNCTION"},{"commentType":"CATALYTIC ACTIVITY","reaction":{"name":"2'-deoxyribonucleotide-(2'-deoxyribose 5'-phosphate)-2'-deoxyribonucleotide-DNA = a 3'-end 2'-deoxyribonucleotide-(2,3-dehydro-2,3-deoxyribose 5'-phosphate)-DNA + a 5'-end 5'-phospho-2'-deoxyribonucleoside-DNA + H(+)","reactionCrossReferences":[{"database":"Rhea","id":"RHEA:66592"},{"database":"Rhea","id":"RHEA-COMP:13180"},{"database":"Rhea","id":"RHEA-COMP:16897"},{"database":"Rhea","id":"RHEA-COMP:17067"},{"database":"ChEBI","id":"CHEBI:15378"},{"database":"ChEBI","id":"CHEBI:136412"},{"database":"ChEBI","id":"CHEBI:157695"},{"database":"ChEBI","id":"CHEBI:167181"}],"ecNumber":"4.2.99.18","evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}]}},{"texts":[{"value":"Contains two alpha-helical subdomains, with the 8-oxoguanine binding site located in a cleft at their interface. Contains a helix-hairpin-helix (HhH) structural motif and a Gly/Pro-rich sequence followed by a conserved Asp (HhH-GPD motif)"}],"commentType":"DOMAIN"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"value":"Belongs to the archaeal N-glycosylase/DNA lyase (AGOG) family"}],"commentType":"SIMILARITY"}],"features":[{"type":"Chain","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":288,"modifier":"EXACT"}},"description":"N-glycosylase/DNA lyase","featureId":"PRO_0000185108"},{"type":"Region","location":{"start":{"value":134,"modifier":"EXACT"},"end":{"value":203,"modifier":"EXACT"}},"description":"Helix-hairpin-helix"},{"type":"Active site","location":{"start":{"value":160,"modifier":"EXACT"},"end":{"value":160,"modifier":"EXACT"}},"description":"Schiff-base intermediate with DNA","evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}]},{"type":"Active site","location":{"start":{"value":191,"modifier":"EXACT"},"end":{"value":191,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}]},{"type":"Binding site","location":{"start":{"value":35,"modifier":"EXACT"},"end":{"value":35,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:52617"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"ligand":{"name":"8-oxoguanine","id":"ChEBI:CHEBI:52617"}},{"type":"Binding site","location":{"start":{"value":62,"modifier":"EXACT"},"end":{"value":62,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:52617"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"ligand":{"name":"8-oxoguanine","id":"ChEBI:CHEBI:52617"}},{"type":"Binding site","location":{"start":{"value":73,"modifier":"EXACT"},"end":{"value":73,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:52617"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"ligand":{"name":"8-oxoguanine","id":"ChEBI:CHEBI:52617"}},{"type":"Binding site","location":{"start":{"value":164,"modifier":"EXACT"},"end":{"value":164,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:52617"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"ligand":{"name":"8-oxoguanine","id":"ChEBI:CHEBI:52617"}},{"type":"Binding site","location":{"start":{"value":189,"modifier":"EXACT"},"end":{"value":189,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:52617"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"ligand":{"name":"8-oxoguanine","id":"ChEBI:CHEBI:52617"}},{"type":"Binding site","location":{"start":{"value":238,"modifier":"EXACT"},"end":{"value":238,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:52617"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"ligand":{"name":"8-oxoguanine","id":"ChEBI:CHEBI:52617"}},{"type":"Binding site","location":{"start":{"value":242,"modifier":"EXACT"},"end":{"value":242,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:52617"}],"evidences":[{"evidenceCode":"ECO:0000255","source":"HAMAP-Rule","id":"MF_01168"}],"ligand":{"name":"8-oxoguanine","id":"ChEBI:CHEBI:52617"}}],"keywords":[{"id":"KW-0227","category":"Biological process","name":"DNA damage"},{"id":"KW-0228","category":"Biological process","name":"DNA excision"},{"id":"KW-0234","category":"Biological process","name":"DNA repair"},{"id":"KW-0378","category":"Molecular function","name":"Hydrolase"},{"id":"KW-0456","category":"Molecular function","name":"Lyase"},{"id":"KW-1185","category":"Technical term","name":"Reference proteome"}],"references":[{"referenceNumber":1,"citation":{"id":"10382966","citationType":"journal article","authors":["Kawarabayasi Y.","Hino Y.","Horikawa H.","Yamazaki S.","Haikawa Y.","Jin-no K.","Takahashi M.","Sekine M.","Baba S.","Ankai A.","Kosugi H.","Hosoyama A.","Fukui S.","Nagai Y.","Nishijima K.","Nakazawa H.","Takamiya M.","Masuda S.","Funahashi T.","Tanaka T.","Kudoh Y.","Yamazaki J.","Kushida N.","Oguchi A.","Aoki K.","Kubota K.","Nakamura Y.","Nomura N.","Sako Y.","Kikuchi H."],"citationCrossReferences":[{"database":"PubMed","id":"10382966"},{"database":"DOI","id":"10.1093/dnares/6.2.83"}],"title":"Complete genome sequence of an aerobic hyper-thermophilic crenarchaeon, Aeropyrum pernix K1.","publicationDate":"1999","journal":"DNA Res.","firstPage":"83","lastPage":"101","volume":"6"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]"],"referenceComments":[{"value":"ATCC 700893 / DSM 11879 / JCM 9820 / NBRC 100138 / K1","type":"STRAIN"}]}],"uniProtKBCrossReferences":[{"database":"EMBL","id":"BA000002","properties":[{"key":"ProteinId","value":"BAA79686.2"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"PIR","id":"F72660","properties":[{"key":"EntryName","value":"F72660"}]},{"database":"RefSeq","id":"WP_010865919.1","properties":[{"key":"NucleotideSequenceId","value":"NC_000854.2"}]},{"database":"AlphaFoldDB","id":"Q9YE60","properties":[{"key":"Description","value":"-"}]},{"database":"SMR","id":"Q9YE60","properties":[{"key":"Description","value":"-"}]},{"database":"STRING","id":"272557.APE_0710.1","properties":[{"key":"Description","value":"-"}]},{"database":"EnsemblBacteria","id":"BAA79686","properties":[{"key":"ProteinId","value":"BAA79686"},{"key":"GeneId","value":"APE_0710.1"}]},{"database":"GeneID","id":"1444838","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"ape:APE_0710.1","properties":[{"key":"Description","value":"-"}]},{"database":"eggNOG","id":"arCOG04144","properties":[{"key":"ToxonomicScope","value":"Archaea"}]},{"database":"Proteomes","id":"UP000002518","properties":[{"key":"Component","value":"Chromosome"}]},{"database":"GO","id":"GO:0140078","properties":[{"key":"GoTerm","value":"F:class I DNA-(apurinic or apyrimidinic site) endonuclease activity"},{"key":"GoEvidenceType","value":"IEA:UniProtKB-EC"}]},{"database":"GO","id":"GO:0000702","properties":[{"key":"GoTerm","value":"F:oxidized base lesion DNA N-glycosylase activity"},{"key":"GoEvidenceType","value":"IEA:UniProtKB-UniRule"}]},{"database":"GO","id":"GO:0006284","properties":[{"key":"GoTerm","value":"P:base-excision repair"},{"key":"GoEvidenceType","value":"IEA:UniProtKB-UniRule"}]},{"database":"Gene3D","id":"1.10.1670.10","properties":[{"key":"EntryName","value":"Helix-hairpin-Helix base-excision DNA repair enzymes (C-terminal)"},{"key":"MatchStatus","value":"1"}]},{"database":"Gene3D","id":"1.10.340.30","properties":[{"key":"EntryName","value":"Hypothetical protein, domain 2"},{"key":"MatchStatus","value":"1"}]},{"database":"HAMAP","id":"MF_01168","properties":[{"key":"EntryName","value":"AGOG"},{"key":"MatchStatus","value":"1"}]},{"database":"InterPro","id":"IPR016544","properties":[{"key":"EntryName","value":"AGOG"}]},{"database":"InterPro","id":"IPR015254","properties":[{"key":"EntryName","value":"AGOG-like"}]},{"database":"InterPro","id":"IPR011257","properties":[{"key":"EntryName","value":"DNA_glycosylase"}]},{"database":"InterPro","id":"IPR023170","properties":[{"key":"EntryName","value":"HhH_base_excis_C"}]},{"database":"NCBIfam","id":"NF009787","properties":[{"key":"EntryName","value":"PRK13280.2-1"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF09171","properties":[{"key":"EntryName","value":"AGOG"},{"key":"MatchStatus","value":"1"}]},{"database":"PIRSF","id":"PIRSF008955","properties":[{"key":"EntryName","value":"AGOG"},{"key":"MatchStatus","value":"1"}]},{"database":"SUPFAM","id":"SSF48150","properties":[{"key":"EntryName","value":"DNA-glycosylase"},{"key":"MatchStatus","value":"1"}]}],"sequence":{"value":"MAQRVRWERVERVAEAFSRLSIGEVLGFEEQVDPQYKLVSRLAGEIGAGKAALSALLVGLASYRLAMRGEEWWLCFYRHMRSSLPRAEGLRGVLRAVEGFLTSCSGAAIGREAKLRRVRRAASAAEVLGEVLDNPLVLVERPSEVLEALRVALGEKGFRKTTVFSVKIAYYAVRPLAGRKPLTLDVPIPVDVRVACASISSEMVEAPSYREVVARPEAAQRAWGRVARSSGIPVLHIDSILWVTGWAPRELPPGEAREAVAGILSRALDRGKAVLLASELVRRPCPGG","length":288,"molWeight":31443,"crc64":"A57E5A1F0A2786C3","md5":"701AD27B2EE52E2DCA64AA89E4BFDF24"},"extraAttributes":{"countByCommentType":{"FUNCTION":1,"CATALYTIC ACTIVITY":1,"DOMAIN":1,"SIMILARITY":1},"countByFeatureType":{"Chain":1,"Region":1,"Active site":2,"Binding site":7},"uniParcId":"UPI0000E52E16"}}