{"entryType":"UniProtKB reviewed (Swiss-Prot)","primaryAccession":"P34209","secondaryAccessions":["P77578"],"uniProtkbId":"YDCF_ECOLI","entryAudit":{"firstPublicDate":"1994-02-01","lastAnnotationUpdateDate":"2026-06-10","lastSequenceUpdateDate":"1997-11-01","entryVersion":151,"sequenceVersion":3},"annotationScore":2.0,"organism":{"scientificName":"Escherichia coli (strain K12)","taxonId":83333,"lineage":["Bacteria","Pseudomonadati","Pseudomonadota","Gammaproteobacteria","Enterobacterales","Enterobacteriaceae","Escherichia"]},"proteinExistence":"1: Evidence at protein level","proteinDescription":{"recommendedName":{"fullName":{"value":"Protein YdcF"}}},"genes":[{"geneName":{"value":"ydcF"},"orderedLocusNames":[{"value":"b1414"},{"value":"JW1411"}]}],"comments":[{"texts":[{"value":"Binds S-adenosyl-L-methionine (AdoMet)"}],"commentType":"FUNCTION"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"18393394"}],"value":"Monomer"}],"commentType":"SUBUNIT"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000305"}],"value":"To S.coelicolor SCO4629"}],"commentType":"SIMILARITY"},{"commentType":"SEQUENCE CAUTION","sequenceCautionType":"Frameshift","sequence":"AAA24246.1","evidences":[{"evidenceCode":"ECO:0000305"}]}],"features":[{"type":"Chain","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":266,"modifier":"EXACT"}},"description":"Protein YdcF","featureId":"PRO_0000168929"},{"type":"Sequence conflict","location":{"start":{"value":97,"modifier":"EXACT"},"end":{"value":97,"modifier":"EXACT"}},"description":"in Ref. 1; AAA24246","evidences":[{"evidenceCode":"ECO:0000305"}],"alternativeSequence":{"originalSequence":"A","alternativeSequences":["R"]}},{"type":"Sequence conflict","location":{"start":{"value":217,"modifier":"EXACT"},"end":{"value":266,"modifier":"EXACT"}},"description":"in Ref. 1","evidences":[{"evidenceCode":"ECO:0000305"}],"alternativeSequence":{"originalSequence":"PRLRDDSDGYGPRGRDFIVHVDFPAEVIHAWQTLKHDAVLIEAMESRSLR","alternativeSequences":["RVYAMIAMATVPAGEILSFTLIFRQKSSMHGKR"]}},{"type":"Helix","location":{"start":{"value":6,"modifier":"EXACT"},"end":{"value":8,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":11,"modifier":"EXACT"},"end":{"value":25,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Turn","location":{"start":{"value":29,"modifier":"EXACT"},"end":{"value":32,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Beta strand","location":{"start":{"value":38,"modifier":"EXACT"},"end":{"value":44,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":48,"modifier":"EXACT"},"end":{"value":61,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Beta strand","location":{"start":{"value":65,"modifier":"EXACT"},"end":{"value":68,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":75,"modifier":"EXACT"},"end":{"value":83,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":88,"modifier":"EXACT"},"end":{"value":90,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":98,"modifier":"EXACT"},"end":{"value":104,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":105,"modifier":"EXACT"},"end":{"value":109,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":114,"modifier":"EXACT"},"end":{"value":116,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Beta strand","location":{"start":{"value":117,"modifier":"EXACT"},"end":{"value":120,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":126,"modifier":"EXACT"},"end":{"value":138,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Beta strand","location":{"start":{"value":147,"modifier":"EXACT"},"end":{"value":150,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Turn","location":{"start":{"value":153,"modifier":"EXACT"},"end":{"value":155,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":156,"modifier":"EXACT"},"end":{"value":167,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Beta strand","location":{"start":{"value":175,"modifier":"EXACT"},"end":{"value":178,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Beta strand","location":{"start":{"value":186,"modifier":"EXACT"},"end":{"value":189,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Beta strand","location":{"start":{"value":192,"modifier":"EXACT"},"end":{"value":197,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":202,"modifier":"EXACT"},"end":{"value":204,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":205,"modifier":"EXACT"},"end":{"value":219,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Beta strand","location":{"start":{"value":225,"modifier":"EXACT"},"end":{"value":227,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Turn","location":{"start":{"value":228,"modifier":"EXACT"},"end":{"value":231,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":238,"modifier":"EXACT"},"end":{"value":240,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":241,"modifier":"EXACT"},"end":{"value":251,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]},{"type":"Helix","location":{"start":{"value":254,"modifier":"EXACT"},"end":{"value":262,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3CA8"}]}],"keywords":[{"id":"KW-0002","category":"Technical term","name":"3D-structure"},{"id":"KW-1185","category":"Technical term","name":"Reference proteome"}],"references":[{"referenceNumber":1,"citation":{"id":"CI-3C63FTCQD60TL","citationType":"submission","authors":["Hidalgo E.","Limon A.","Aguilar J."],"title":"A third gene with high homology to gap gene in the Escherichia coli chromosome.","publicationDate":"NOV-1993","submissionDatabase":"EMBL/GenBank/DDBJ databases"},"referencePositions":["NUCLEOTIDE SEQUENCE [GENOMIC DNA]"],"referenceComments":[{"value":"K12","type":"STRAIN"}]},{"referenceNumber":2,"citation":{"id":"9097039","citationType":"journal article","authors":["Aiba H.","Baba T.","Fujita K.","Hayashi K.","Inada T.","Isono K.","Itoh T.","Kasai H.","Kashimoto K.","Kimura S.","Kitakawa M.","Kitagawa M.","Makino K.","Miki T.","Mizobuchi K.","Mori H.","Mori T.","Motomura K.","Nakade S.","Nakamura Y.","Nashimoto H.","Nishio Y.","Oshima T.","Saito N.","Sampei G.","Seki Y.","Sivasundaram S.","Tagami H.","Takeda J.","Takemoto K.","Takeuchi Y.","Wada C.","Yamamoto Y.","Horiuchi T."],"citationCrossReferences":[{"database":"PubMed","id":"9097039"},{"database":"DOI","id":"10.1093/dnares/3.6.363"}],"title":"A 570-kb DNA sequence of the Escherichia coli K-12 genome corresponding to the 28.0-40.1 min region on the linkage map.","publicationDate":"1996","journal":"DNA Res.","firstPage":"363","lastPage":"377","volume":"3"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]"],"referenceComments":[{"value":"K12 / W3110 / ATCC 27325 / DSM 5911","type":"STRAIN"}]},{"referenceNumber":3,"citation":{"id":"9278503","citationType":"journal article","authors":["Blattner F.R.","Plunkett G. III","Bloch C.A.","Perna N.T.","Burland V.","Riley M.","Collado-Vides J.","Glasner J.D.","Rode C.K.","Mayhew G.F.","Gregor J.","Davis N.W.","Kirkpatrick H.A.","Goeden M.A.","Rose D.J.","Mau B.","Shao Y."],"citationCrossReferences":[{"database":"PubMed","id":"9278503"},{"database":"DOI","id":"10.1126/science.277.5331.1453"}],"title":"The complete genome sequence of Escherichia coli K-12.","publicationDate":"1997","journal":"Science","firstPage":"1453","lastPage":"1462","volume":"277"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]"],"referenceComments":[{"value":"K12 / MG1655 / ATCC 47076","type":"STRAIN"}]},{"referenceNumber":4,"citation":{"id":"16738553","citationType":"journal article","authors":["Hayashi K.","Morooka N.","Yamamoto Y.","Fujita K.","Isono K.","Choi S.","Ohtsubo E.","Baba T.","Wanner B.L.","Mori H.","Horiuchi T."],"citationCrossReferences":[{"database":"PubMed","id":"16738553"},{"database":"DOI","id":"10.1038/msb4100049"}],"title":"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110.","publicationDate":"2006","journal":"Mol. Syst. Biol.","firstPage":"E1","lastPage":"E5","volume":"2"},"referencePositions":["NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]"],"referenceComments":[{"value":"K12 / W3110 / ATCC 27325 / DSM 5911","type":"STRAIN"}]},{"referenceNumber":5,"citation":{"id":"10493123","citationType":"journal article","authors":["Fountoulakis M.","Takacs M.-F.","Berndt P.","Langen H.","Takacs B."],"citationCrossReferences":[{"database":"PubMed","id":"10493123"},{"database":"DOI","id":"10.1002/(sici)1522-2683(19990801)20:11<2181::aid-elps2181>3.0.co;2-q"}],"title":"Enrichment of low abundance proteins of Escherichia coli by hydroxyapatite chromatography.","publicationDate":"1999","journal":"Electrophoresis","firstPage":"2181","lastPage":"2195","volume":"20"},"referencePositions":["IDENTIFICATION BY MASS SPECTROMETRY"],"referenceComments":[{"value":"B / BL21","type":"STRAIN"}]},{"referenceNumber":6,"citation":{"id":"18393394","citationType":"journal article","authors":["Chao K.L.","Lim K.","Lehmann C.","Doseeva V.","Howard A.J.","Schwarz F.P.","Herzberg O."],"citationCrossReferences":[{"database":"PubMed","id":"18393394"},{"database":"DOI","id":"10.1002/prot.22046"}],"title":"The Escherichia coli YdcF binds S-adenosyl-L-methionine and adopts an alpha/beta-fold characteristic of nucleotide-utilizing enzymes.","publicationDate":"2008","journal":"Proteins","firstPage":"506","lastPage":"509","volume":"72"},"referencePositions":["X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS)","SUBUNIT","S-ADENOSYL-L-METHIONINE BINDING"]}],"uniProtKBCrossReferences":[{"database":"EMBL","id":"L09068","properties":[{"key":"ProteinId","value":"AAA24246.1"},{"key":"Status","value":"ALT_FRAME"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"U00096","properties":[{"key":"ProteinId","value":"AAC74496.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"AP009048","properties":[{"key":"ProteinId","value":"BAA15030.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"PIR","id":"A64893","properties":[{"key":"EntryName","value":"A64893"}]},{"database":"RefSeq","id":"NP_415932.1","properties":[{"key":"NucleotideSequenceId","value":"NC_000913.3"}]},{"database":"RefSeq","id":"WP_001027942.1","properties":[{"key":"NucleotideSequenceId","value":"NZ_CP009789.1"}]},{"database":"PDB","id":"3CA8","properties":[{"key":"Method","value":"X-ray"},{"key":"Resolution","value":"1.80 A"},{"key":"Chains","value":"A/B=1-266"}]},{"database":"PDBsum","id":"3CA8","properties":[{"key":"Description","value":"-"}]},{"database":"AlphaFoldDB","id":"P34209","properties":[{"key":"Description","value":"-"}]},{"database":"SMR","id":"P34209","properties":[{"key":"Description","value":"-"}]},{"database":"BioGRID","id":"4261553","properties":[{"key":"Interactions","value":"11"}]},{"database":"BioGRID","id":"850575","properties":[{"key":"Interactions","value":"1"}]},{"database":"DIP","id":"DIP-11642N","properties":[{"key":"Description","value":"-"}]},{"database":"FunCoup","id":"P34209","properties":[{"key":"Number of interactors","value":"3"}]},{"database":"IntAct","id":"P34209","properties":[{"key":"Interactions","value":"2"}]},{"database":"STRING","id":"511145.b1414","properties":[{"key":"Description","value":"-"}]},{"database":"jPOST","id":"P34209","properties":[{"key":"Description","value":"-"}]},{"database":"PaxDb","id":"511145-b1414","properties":[{"key":"Description","value":"-"}]},{"database":"EnsemblBacteria","id":"AAC74496","properties":[{"key":"ProteinId","value":"AAC74496"},{"key":"GeneId","value":"b1414"}]},{"database":"GeneID","id":"75203495","properties":[{"key":"Description","value":"-"}]},{"database":"GeneID","id":"946215","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"ecj:JW1411","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"eco:b1414","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"ecoc:C3026_08235","properties":[{"key":"Description","value":"-"}]},{"database":"PATRIC","id":"fig|1411691.4.peg.857","properties":[{"key":"GeneDesignation","value":"-"}]},{"database":"EchoBASE","id":"EB2033","properties":[{"key":"Description","value":"-"}]},{"database":"eggNOG","id":"COG1434","properties":[{"key":"ToxonomicScope","value":"Bacteria"}]},{"database":"HOGENOM","id":"CLU_084257_0_0_6","properties":[{"key":"Description","value":"-"}]},{"database":"InParanoid","id":"P34209","properties":[{"key":"Description","value":"-"}]},{"database":"OMA","id":"WPTFVPK","properties":[{"key":"Fingerprint","value":"-"}]},{"database":"OrthoDB","id":"2216870at2","properties":[{"key":"Description","value":"-"}]},{"database":"PhylomeDB","id":"P34209","properties":[{"key":"Description","value":"-"}]},{"database":"BioCyc","id":"EcoCyc:EG12110-MONOMER","properties":[{"key":"Description","value":"-"}]},{"database":"EvolutionaryTrace","id":"P34209","properties":[{"key":"Description","value":"-"}]},{"database":"PRO","id":"PR:P34209","properties":[{"key":"Description","value":"-"}]},{"database":"Proteomes","id":"UP000000625","properties":[{"key":"Component","value":"Chromosome"}]},{"database":"GO","id":"GO:0005886","properties":[{"key":"GoTerm","value":"C:plasma membrane"},{"key":"GoEvidenceType","value":"IBA:GO_Central"}]},{"database":"CDD","id":"cd06259","properties":[{"key":"EntryName","value":"YdcF-like"},{"key":"MatchStatus","value":"1"}]},{"database":"Gene3D","id":"3.40.50.620","properties":[{"key":"EntryName","value":"HUPs"},{"key":"MatchStatus","value":"1"}]},{"database":"Gene3D","id":"1.10.3620.10","properties":[{"key":"EntryName","value":"YdcF like domain"},{"key":"MatchStatus","value":"1"}]},{"database":"InterPro","id":"IPR051599","properties":[{"key":"EntryName","value":"Cell_Envelope_Assoc"}]},{"database":"InterPro","id":"IPR003848","properties":[{"key":"EntryName","value":"DUF218"}]},{"database":"InterPro","id":"IPR014729","properties":[{"key":"EntryName","value":"Rossmann-like_a/b/a_fold"}]},{"database":"PANTHER","id":"PTHR30336:SF20","properties":[{"key":"EntryName","value":"DUF218 DOMAIN-CONTAINING PROTEIN"},{"key":"MatchStatus","value":"1"}]},{"database":"PANTHER","id":"PTHR30336","properties":[{"key":"EntryName","value":"INNER MEMBRANE PROTEIN, PROBABLE PERMEASE"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF02698","properties":[{"key":"EntryName","value":"DUF218"},{"key":"MatchStatus","value":"1"}]}],"sequence":{"value":"MNITPFPTLSPATIDAINVIGQWLAQDDFSGEVPYQADCVILAGNAVMPTIDAACKIARDQQIPLLISGGIGHSTTFLYSAIAQHPHYNTIRTTGRAEATILADIAHQFWHIPHEKIWIEDQSTNCGENARFSIALLNQAVERVHTAIVVQDPTMQRRTMATFRRMTGDNPDAPRWLSYPGFVPQLGNNADSVIFINQLQGLWPVERYLSLLTGELPRLRDDSDGYGPRGRDFIVHVDFPAEVIHAWQTLKHDAVLIEAMESRSLR","length":266,"molWeight":29706,"crc64":"DA59CFB3D34728A5","md5":"BE2D224193FFE564E32C8B68A89592D8"},"extraAttributes":{"countByCommentType":{"FUNCTION":1,"SUBUNIT":1,"SIMILARITY":1,"SEQUENCE CAUTION":1},"countByFeatureType":{"Chain":1,"Sequence conflict":2,"Helix":15,"Turn":3,"Beta strand":8},"uniParcId":"UPI000013A91E"}}