{"entryType":"UniProtKB reviewed (Swiss-Prot)","primaryAccession":"P31129","secondaryAccessions":["P76152","P77452"],"uniProtkbId":"DGCZ_ECOLI","entryAudit":{"firstPublicDate":"1993-07-01","lastAnnotationUpdateDate":"2026-09-02","lastSequenceUpdateDate":"1998-07-15","entryVersion":174,"sequenceVersion":2},"annotationScore":5.0,"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":{"evidences":[{"evidenceCode":"ECO:0000303","source":"PubMed","id":"23769666"}],"value":"Diguanylate cyclase DgcZ"},"shortNames":[{"evidences":[{"evidenceCode":"ECO:0000303","source":"PubMed","id":"18713317"}],"value":"DGC"}],"ecNumbers":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19460094"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"20582742"},{"evidenceCode":"ECO:0000305","source":"PubMed","id":"18713317"}],"value":"2.7.7.65"}]},"alternativeNames":[{"fullName":{"evidences":[{"evidenceCode":"ECO:0000303","source":"PubMed","id":"23769666"}],"value":"Zinc-sensory diguanylate cyclase"}}]},"genes":[{"geneName":{"evidences":[{"evidenceCode":"ECO:0000303","source":"PubMed","id":"23769666"},{"evidenceCode":"ECO:0000303","source":"PubMed","id":"26148715"}],"value":"dgcZ"},"synonyms":[{"value":"ydeG"},{"value":"ydeH"}],"orderedLocusNames":[{"value":"b1535"},{"value":"JW1528"}]}],"comments":[{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19460094"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"20582742"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"},{"evidenceCode":"ECO:0000305","source":"PubMed","id":"18713317"}],"value":"Catalyzes the synthesis of cyclic-di-GMP (c-di-GMP) via the condensation of 2 GTP molecules (PubMed:18713317, PubMed:19460094, PubMed:20582742). May act as a zinc sensor that controls, via c-di-GMP, post-translational events (PubMed:23769666). Overexpression leads to a strong repression of swimming; swimming returnes to normal when residues 206-207 are both mutated to Ala. Overexpression also leads to a reduction in flagellar abundance and a 20-fold increase in c-di-GMP levels in vivo. Required for aminoglycoside-mediated induction of biofilm formation, it also plays a lesser role in biofilm production in response to other classes of translation inhibitors. The c-di-GMP produced by this enzyme up-regulates poly-GlcNAc production as well as the biofilm synthesis protein PgaD, although c-di-GMP is probably not the main inducing principle. C-di-GMP is a second messenger which controls cell surface-associated traits in bacteria (PubMed:19460094)"}],"commentType":"FUNCTION"},{"commentType":"CATALYTIC ACTIVITY","reaction":{"name":"2 GTP = 3',3'-c-di-GMP + 2 diphosphate","reactionCrossReferences":[{"database":"Rhea","id":"RHEA:24898"},{"database":"ChEBI","id":"CHEBI:33019"},{"database":"ChEBI","id":"CHEBI:37565"},{"database":"ChEBI","id":"CHEBI:58805"}],"ecNumber":"2.7.7.65","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19460094"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"20582742"},{"evidenceCode":"ECO:0000305","source":"PubMed","id":"18713317"}]}},{"commentType":"COFACTOR","cofactors":[{"name":"Mg(2+)","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"}],"cofactorCrossReference":{"database":"ChEBI","id":"CHEBI:18420"}}],"note":{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"}],"value":"Binds 1 Mg(2+) ion per monomer."}]}},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19460094"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"}],"value":"Allosterically regulated by zinc, which seems to regulate the activity of the catalytic GGDEF domains by impeding their mobility and thus preventing productive encounter of the two GTP substrates (PubMed:23769666). Subject to product inhibition by c-di-GMP at a KI of 44 uM (PubMed:19460094)"}],"commentType":"ACTIVITY REGULATION"},{"commentType":"BIOPHYSICOCHEMICAL PROPERTIES","kineticParameters":{"michaelisConstants":[{"constant":17.0,"unit":"uM","substrate":"GTP","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19460094"}]}]},"phDependence":{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"20582742"}],"value":"Optimum pH is 7.5."}]}},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000305"}],"value":"Purine metabolism; 3',5'-cyclic di-GMP biosynthesis"}],"commentType":"PATHWAY"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19460094"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"}],"value":"Homodimer"}],"commentType":"SUBUNIT"},{"commentType":"INTERACTION","interactions":[{"interactantOne":{"uniProtKBAccession":"P31129","intActId":"EBI-1124405"},"interactantTwo":{"uniProtKBAccession":"P31129","geneName":"dgcZ","intActId":"EBI-1124405"},"numberOfExperiments":3,"organismDiffer":false}]},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"18713317"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19332833"}],"value":"CsrA binds to the mRNA and reduces its levels. Expressed at low levels at both 28 and 37 degrees Celsius. Repressed by RpoS"}],"commentType":"INDUCTION"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"}],"value":"Contains an N-terminal CZB (chemoreceptor zinc binding) domain and a C-terminal GGDEF domain"}],"commentType":"DOMAIN"},{"texts":[{"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"18713317"},{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19460094"}],"value":"A slight increase in motility. No visible effect on curli production (PubMed:18713317). Decreased biofilm formation, very little associated poly-GlcNAc production, and a complete loss of aminoglycoside-mediated induction of biofilm formation (PubMed:19460094)"}],"commentType":"DISRUPTION PHENOTYPE"},{"commentType":"SEQUENCE CAUTION","sequenceCautionType":"Frameshift","sequence":"M96235","evidences":[{"evidenceCode":"ECO:0000305"}]}],"features":[{"type":"Chain","location":{"start":{"value":1,"modifier":"EXACT"},"end":{"value":296,"modifier":"EXACT"}},"description":"Diguanylate cyclase DgcZ","featureId":"PRO_0000168946"},{"type":"Domain","location":{"start":{"value":157,"modifier":"EXACT"},"end":{"value":289,"modifier":"EXACT"}},"description":"GGDEF","evidences":[{"evidenceCode":"ECO:0000255","source":"PROSITE-ProRule","id":"PRU00095"}]},{"type":"Active site","location":{"start":{"value":208,"modifier":"EXACT"},"end":{"value":208,"modifier":"EXACT"}},"description":"Proton acceptor","evidences":[{"evidenceCode":"ECO:0000255"}]},{"type":"Binding site","location":{"start":{"value":22,"modifier":"EXACT"},"end":{"value":22,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"3T9O"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"4H54"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105"}},{"type":"Binding site","location":{"start":{"value":52,"modifier":"EXACT"},"end":{"value":52,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"3T9O"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105"}},{"type":"Binding site","location":{"start":{"value":79,"modifier":"EXACT"},"end":{"value":79,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"3T9O"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"4H54"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105"}},{"type":"Binding site","location":{"start":{"value":83,"modifier":"EXACT"},"end":{"value":83,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:29105"}],"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"3T9O"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"4H54"}],"ligand":{"name":"Zn(2+)","id":"ChEBI:CHEBI:29105"}},{"type":"Binding site","location":{"start":{"value":165,"modifier":"EXACT"},"end":{"value":165,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:18420"}],"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"4H54"}],"ligand":{"name":"Mg(2+)","id":"ChEBI:CHEBI:18420"}},{"type":"Binding site","location":{"start":{"value":166,"modifier":"EXACT"},"end":{"value":166,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:18420"}],"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"4H54"}],"ligand":{"name":"Mg(2+)","id":"ChEBI:CHEBI:18420"}},{"type":"Binding site","location":{"start":{"value":173,"modifier":"EXACT"},"end":{"value":173,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0000305","source":"PubMed","id":"23769666"}],"ligand":{"name":"substrate"}},{"type":"Binding site","location":{"start":{"value":178,"modifier":"EXACT"},"end":{"value":178,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0000305","source":"PubMed","id":"23769666"}],"ligand":{"name":"substrate"}},{"type":"Binding site","location":{"start":{"value":182,"modifier":"EXACT"},"end":{"value":182,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0000305","source":"PubMed","id":"23769666"}],"ligand":{"name":"substrate"}},{"type":"Binding site","location":{"start":{"value":195,"modifier":"EXACT"},"end":{"value":200,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0000305","source":"PubMed","id":"23769666"}],"ligand":{"name":"substrate"}},{"type":"Binding site","location":{"start":{"value":208,"modifier":"EXACT"},"end":{"value":208,"modifier":"EXACT"}},"description":"","featureCrossReferences":[{"database":"ChEBI","id":"CHEBI:18420"}],"evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"4H54"}],"ligand":{"name":"Mg(2+)","id":"ChEBI:CHEBI:18420"}},{"type":"Binding site","location":{"start":{"value":215,"modifier":"EXACT"},"end":{"value":215,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0000305","source":"PubMed","id":"23769666"}],"ligand":{"name":"substrate"}},{"type":"Binding site","location":{"start":{"value":224,"modifier":"EXACT"},"end":{"value":224,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0000305","source":"PubMed","id":"23769666"}],"ligand":{"name":"substrate"}},{"type":"Binding site","location":{"start":{"value":228,"modifier":"EXACT"},"end":{"value":228,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0000305","source":"PubMed","id":"23769666"}],"ligand":{"name":"substrate"}},{"type":"Site","location":{"start":{"value":170,"modifier":"EXACT"},"end":{"value":170,"modifier":"EXACT"}},"description":"Transition state stabilizer","evidences":[{"evidenceCode":"ECO:0000255"}]},{"type":"Mutagenesis","location":{"start":{"value":52,"modifier":"EXACT"},"end":{"value":52,"modifier":"EXACT"}},"description":"Decreases zinc affinity by one order of magnitude.","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"}],"alternativeSequence":{"originalSequence":"C","alternativeSequences":["A"]}},{"type":"Mutagenesis","location":{"start":{"value":79,"modifier":"EXACT"},"end":{"value":79,"modifier":"EXACT"}},"description":"Displays constitutively high biofilm and PgaD levels; when associated with L-83.","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"}],"alternativeSequence":{"originalSequence":"H","alternativeSequences":["L"]}},{"type":"Mutagenesis","location":{"start":{"value":83,"modifier":"EXACT"},"end":{"value":83,"modifier":"EXACT"}},"description":"Displays constitutively high biofilm and PgaD levels; when associated with L-79.","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"23769666"}],"alternativeSequence":{"originalSequence":"H","alternativeSequences":["L"]}},{"type":"Mutagenesis","location":{"start":{"value":206,"modifier":"EXACT"},"end":{"value":207,"modifier":"EXACT"}},"description":"Cells overexpressing this mutant are no longer swimming suppressed.","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"18713317"}],"alternativeSequence":{"originalSequence":"GG","alternativeSequences":["AA"]}},{"type":"Mutagenesis","location":{"start":{"value":208,"modifier":"EXACT"},"end":{"value":208,"modifier":"EXACT"}},"description":"Significantly decreased biofilm formation.","evidences":[{"evidenceCode":"ECO:0000269","source":"PubMed","id":"19460094"}],"alternativeSequence":{"originalSequence":"E","alternativeSequences":["Q"]}},{"type":"Helix","location":{"start":{"value":6,"modifier":"EXACT"},"end":{"value":35,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3T9O"}]},{"type":"Helix","location":{"start":{"value":41,"modifier":"EXACT"},"end":{"value":44,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3T9O"}]},{"type":"Helix","location":{"start":{"value":48,"modifier":"EXACT"},"end":{"value":50,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3T9O"}]},{"type":"Helix","location":{"start":{"value":53,"modifier":"EXACT"},"end":{"value":59,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3T9O"}]},{"type":"Turn","location":{"start":{"value":66,"modifier":"EXACT"},"end":{"value":68,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3T9O"}]},{"type":"Helix","location":{"start":{"value":69,"modifier":"EXACT"},"end":{"value":94,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3T9O"}]},{"type":"Helix","location":{"start":{"value":100,"modifier":"EXACT"},"end":{"value":125,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3T9O"}]},{"type":"Turn","location":{"start":{"value":133,"modifier":"EXACT"},"end":{"value":135,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Helix","location":{"start":{"value":140,"modifier":"EXACT"},"end":{"value":152,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Beta strand","location":{"start":{"value":157,"modifier":"EXACT"},"end":{"value":166,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Helix","location":{"start":{"value":169,"modifier":"EXACT"},"end":{"value":176,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Helix","location":{"start":{"value":178,"modifier":"EXACT"},"end":{"value":194,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Beta strand","location":{"start":{"value":202,"modifier":"EXACT"},"end":{"value":204,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Beta strand","location":{"start":{"value":206,"modifier":"EXACT"},"end":{"value":218,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Helix","location":{"start":{"value":219,"modifier":"EXACT"},"end":{"value":235,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Beta strand","location":{"start":{"value":238,"modifier":"EXACT"},"end":{"value":240,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Beta strand","location":{"start":{"value":243,"modifier":"EXACT"},"end":{"value":245,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Beta strand","location":{"start":{"value":249,"modifier":"EXACT"},"end":{"value":256,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Helix","location":{"start":{"value":262,"modifier":"EXACT"},"end":{"value":278,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Beta strand","location":{"start":{"value":281,"modifier":"EXACT"},"end":{"value":287,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]},{"type":"Beta strand","location":{"start":{"value":293,"modifier":"EXACT"},"end":{"value":295,"modifier":"EXACT"}},"description":"","evidences":[{"evidenceCode":"ECO:0007829","source":"PDB","id":"3TVK"}]}],"keywords":[{"id":"KW-0002","category":"Technical term","name":"3D-structure"},{"id":"KW-0021","category":"Molecular function","name":"Allosteric enzyme"},{"id":"KW-0342","category":"Ligand","name":"GTP-binding"},{"id":"KW-0460","category":"Ligand","name":"Magnesium"},{"id":"KW-0479","category":"Ligand","name":"Metal-binding"},{"id":"KW-0547","category":"Ligand","name":"Nucleotide-binding"},{"id":"KW-1185","category":"Technical term","name":"Reference proteome"},{"id":"KW-0808","category":"Molecular function","name":"Transferase"}],"references":[{"referenceNumber":1,"citation":{"id":"8383113","citationType":"journal article","authors":["Cohen S.P.","Haechler H.","Levy S.B."],"citationCrossReferences":[{"database":"PubMed","id":"8383113"},{"database":"DOI","id":"10.1128/jb.175.5.1484-1492.1993"}],"title":"Genetic and functional analysis of the multiple antibiotic resistance (mar) locus in Escherichia coli.","publicationDate":"1993","journal":"J. Bacteriol.","firstPage":"1484","lastPage":"1492","volume":"175"},"referencePositions":["NUCLEOTIDE SEQUENCE [GENOMIC DNA]"]},{"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":"18713317","citationType":"journal article","authors":["Jonas K.","Edwards A.N.","Simm R.","Romeo T.","Romling U.","Melefors O."],"citationCrossReferences":[{"database":"PubMed","id":"18713317"},{"database":"DOI","id":"10.1111/j.1365-2958.2008.06411.x"}],"title":"The RNA binding protein CsrA controls cyclic di-GMP metabolism by directly regulating the expression of GGDEF proteins.","publicationDate":"2008","journal":"Mol. Microbiol.","firstPage":"236","lastPage":"257","volume":"70"},"referencePositions":["PROBABLE ENZYME ACTIVITY","MUTAGENESIS OF 206-GLY-GLY-207","DISRUPTION PHENOTYPE","POST-TRANSCRIPTIONAL REGULATION BY CSRA"],"referenceComments":[{"value":"K12","type":"STRAIN"}]},{"referenceNumber":6,"citation":{"id":"19332833","citationType":"journal article","authors":["Sommerfeldt N.","Possling A.","Becker G.","Pesavento C.","Tschowri N.","Hengge R."],"citationCrossReferences":[{"database":"PubMed","id":"19332833"},{"database":"DOI","id":"10.1099/mic.0.024257-0"}],"title":"Gene expression patterns and differential input into curli fimbriae regulation of all GGDEF/EAL domain proteins in Escherichia coli.","publicationDate":"2009","journal":"Microbiology","firstPage":"1318","lastPage":"1331","volume":"155"},"referencePositions":["INDUCTION","RPOS-REPRESSION"],"referenceComments":[{"value":"K12 / W3110 / ATCC 27325 / DSM 5911","type":"STRAIN"}]},{"referenceNumber":7,"citation":{"id":"19460094","citationType":"journal article","authors":["Boehm A.","Steiner S.","Zaehringer F.","Casanova A.","Hamburger F.","Ritz D.","Keck W.","Ackermann M.","Schirmer T.","Jenal U."],"citationCrossReferences":[{"database":"PubMed","id":"19460094"},{"database":"DOI","id":"10.1111/j.1365-2958.2009.06739.x"}],"title":"Second messenger signalling governs Escherichia coli biofilm induction upon ribosomal stress.","publicationDate":"2009","journal":"Mol. Microbiol.","firstPage":"1500","lastPage":"1516","volume":"72"},"referencePositions":["FUNCTION IN BIOFILM FORMATION","CATALYTIC ACTIVITY","BIOPHYSICOCHEMICAL PROPERTIES","ACTIVITY REGULATION","SUBUNIT","MUTAGENESIS OF GLU-208","DISRUPTION PHENOTYPE"],"referenceComments":[{"value":"K12 / AB400","type":"STRAIN"}]},{"referenceNumber":8,"citation":{"id":"20582742","citationType":"journal article","authors":["Zaehringer F.","Massa C.","Schirmer T."],"citationCrossReferences":[{"database":"PubMed","id":"20582742"},{"database":"DOI","id":"10.1007/s12010-010-9017-x"}],"title":"Efficient enzymatic production of the bacterial second messenger c-di-GMP by the diguanylate cyclase YdeH from E. coli.","publicationDate":"2011","journal":"Appl. Biochem. Biotechnol.","firstPage":"71","lastPage":"79","volume":"163"},"referencePositions":["FUNCTION","CATALYTIC ACTIVITY","BIOPHYSICOCHEMICAL PROPERTIES"]},{"referenceNumber":9,"citation":{"id":"26148715","citationType":"journal article","authors":["Hengge R.","Galperin M.Y.","Ghigo J.M.","Gomelsky M.","Green J.","Hughes K.T.","Jenal U.","Landini P."],"citationCrossReferences":[{"database":"PubMed","id":"26148715"},{"database":"DOI","id":"10.1128/jb.00424-15"}],"title":"Systematic nomenclature for GGDEF and EAL domain-containing cyclic di-GMP turnover proteins of Escherichia coli.","publicationDate":"2015","journal":"J. Bacteriol.","firstPage":"7","lastPage":"11","volume":"198"},"referencePositions":["NOMENCLATURE"]},{"referenceNumber":10,"citation":{"id":"23769666","citationType":"journal article","authors":["Zahringer F.","Lacanna E.","Jenal U.","Schirmer T.","Boehm A."],"citationCrossReferences":[{"database":"PubMed","id":"23769666"},{"database":"DOI","id":"10.1016/j.str.2013.04.026"}],"title":"Structure and signaling mechanism of a zinc-sensory diguanylate cyclase.","publicationDate":"2013","journal":"Structure","firstPage":"1149","lastPage":"1157","volume":"21"},"referencePositions":["X-RAY CRYSTALLOGRAPHY (1.80 ANGSTROMS) OF 127-296 IN COMPLEXES WITH CYCLIC DIGUANOSINE MONOPHOSPHATE; MAGNESIUM AND ZINC","FUNCTION","NOMENCLATURE","COFACTOR","ACTIVITY REGULATION","SUBUNIT","DOMAIN","MUTAGENESIS OF CYS-52; HIS-79 AND HIS-83"],"evidences":[{"evidenceCode":"ECO:0007744","source":"PDB","id":"3T9O"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"3TVK"},{"evidenceCode":"ECO:0007744","source":"PDB","id":"4H54"}]}],"uniProtKBCrossReferences":[{"database":"EMBL","id":"M96235","properties":[{"key":"ProteinId","value":"-"},{"key":"Status","value":"NOT_ANNOTATED_CDS"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"U00096","properties":[{"key":"ProteinId","value":"AAC74608.1"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"EMBL","id":"AP009048","properties":[{"key":"ProteinId","value":"BAA18882.2"},{"key":"Status","value":"-"},{"key":"MoleculeType","value":"Genomic_DNA"}]},{"database":"PIR","id":"B64908","properties":[{"key":"EntryName","value":"B64908"}]},{"database":"RefSeq","id":"NP_416052.1","properties":[{"key":"NucleotideSequenceId","value":"NC_000913.3"}]},{"database":"RefSeq","id":"WP_000592814.1","properties":[{"key":"NucleotideSequenceId","value":"NZ_CP009789.1"}]},{"database":"PDB","id":"3T9O","properties":[{"key":"Method","value":"X-ray"},{"key":"Resolution","value":"2.20 A"},{"key":"Chains","value":"A/B=2-126"}]},{"database":"PDB","id":"3TVK","properties":[{"key":"Method","value":"X-ray"},{"key":"Resolution","value":"1.80 A"},{"key":"Chains","value":"A=127-296"}]},{"database":"PDB","id":"4H54","properties":[{"key":"Method","value":"X-ray"},{"key":"Resolution","value":"3.90 A"},{"key":"Chains","value":"A/B=2-296"}]},{"database":"PDBsum","id":"3T9O","properties":[{"key":"Description","value":"-"}]},{"database":"PDBsum","id":"3TVK","properties":[{"key":"Description","value":"-"}]},{"database":"PDBsum","id":"4H54","properties":[{"key":"Description","value":"-"}]},{"database":"AlphaFoldDB","id":"P31129","properties":[{"key":"Description","value":"-"}]},{"database":"SMR","id":"P31129","properties":[{"key":"Description","value":"-"}]},{"database":"BioGRID","id":"4259114","properties":[{"key":"Interactions","value":"15"}]},{"database":"DIP","id":"DIP-11677N","properties":[{"key":"Description","value":"-"}]},{"database":"FunCoup","id":"P31129","properties":[{"key":"Number of interactors","value":"178"}]},{"database":"IntAct","id":"P31129","properties":[{"key":"Interactions","value":"6"}]},{"database":"STRING","id":"511145.b1535","properties":[{"key":"Description","value":"-"}]},{"database":"PaxDb","id":"511145-b1535","properties":[{"key":"Description","value":"-"}]},{"database":"EnsemblBacteria","id":"AAC74608","properties":[{"key":"ProteinId","value":"AAC74608"},{"key":"GeneId","value":"b1535"}]},{"database":"GeneID","id":"946075","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"ecj:JW1528","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"eco:b1535","properties":[{"key":"Description","value":"-"}]},{"database":"KEGG","id":"ecoc:C3026_08870","properties":[{"key":"Description","value":"-"}]},{"database":"PATRIC","id":"fig|511145.12.peg.1605","properties":[{"key":"GeneDesignation","value":"-"}]},{"database":"EchoBASE","id":"EB1596","properties":[{"key":"Description","value":"-"}]},{"database":"eggNOG","id":"COG3706","properties":[{"key":"ToxonomicScope","value":"Bacteria"}]},{"database":"HOGENOM","id":"CLU_000445_11_5_6","properties":[{"key":"Description","value":"-"}]},{"database":"InParanoid","id":"P31129","properties":[{"key":"Description","value":"-"}]},{"database":"OMA","id":"NIRSNMD","properties":[{"key":"Fingerprint","value":"-"}]},{"database":"OrthoDB","id":"9812260at2","properties":[{"key":"Description","value":"-"}]},{"database":"PhylomeDB","id":"P31129","properties":[{"key":"Description","value":"-"}]},{"database":"BioCyc","id":"EcoCyc:EG11643-MONOMER","properties":[{"key":"Description","value":"-"}]},{"database":"BioCyc","id":"MetaCyc:EG11643-MONOMER","properties":[{"key":"Description","value":"-"}]},{"database":"BRENDA","id":"2.7.7.65","properties":[{"key":"OrganismId","value":"2026"}]},{"database":"SABIO-RK","id":"P31129","properties":[{"key":"Description","value":"-"}]},{"database":"UniPathway","id":"UPA00599","properties":[{"key":"RectionId","value":"-"}]},{"database":"EvolutionaryTrace","id":"P31129","properties":[{"key":"Description","value":"-"}]},{"database":"PRO","id":"PR:P31129","properties":[{"key":"Description","value":"-"}]},{"database":"Proteomes","id":"UP000000625","properties":[{"key":"Component","value":"Chromosome"}]},{"database":"AbasyAtlas","id":"P31129","properties":[{"key":"Description","value":"-"}]},{"database":"GO","id":"GO:0060187","properties":[{"key":"GoTerm","value":"C:cell pole"},{"key":"GoEvidenceType","value":"IDA:EcoCyc"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"27402625"}]},{"database":"GO","id":"GO:0005886","properties":[{"key":"GoTerm","value":"C:plasma membrane"},{"key":"GoEvidenceType","value":"IBA:GO_Central"}]},{"database":"GO","id":"GO:0052621","properties":[{"key":"GoTerm","value":"F:diguanylate cyclase activity"},{"key":"GoEvidenceType","value":"IDA:EcoCyc"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"18713317"},{"evidenceCode":"ECO:0000314","source":"PubMed","id":"19460094"}]},{"database":"GO","id":"GO:0042802","properties":[{"key":"GoTerm","value":"F:identical protein binding"},{"key":"GoEvidenceType","value":"IPI:IntAct"}],"evidences":[{"evidenceCode":"ECO:0000353","source":"PubMed","id":"23769666"}]},{"database":"GO","id":"GO:0042803","properties":[{"key":"GoTerm","value":"F:protein homodimerization activity"},{"key":"GoEvidenceType","value":"IDA:EcoCyc"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"23769666"}]},{"database":"GO","id":"GO:0008270","properties":[{"key":"GoTerm","value":"F:zinc ion binding"},{"key":"GoEvidenceType","value":"IDA:EcoCyc"}],"evidences":[{"evidenceCode":"ECO:0000314","source":"PubMed","id":"23769666"}]},{"database":"GO","id":"GO:0043709","properties":[{"key":"GoTerm","value":"P:cell adhesion involved in single-species biofilm formation"},{"key":"GoEvidenceType","value":"IMP:EcoCyc"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"19460094"}]},{"database":"GO","id":"GO:1902209","properties":[{"key":"GoTerm","value":"P:negative regulation of bacterial-type flagellum assembly"},{"key":"GoEvidenceType","value":"IMP:EcoCyc"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"18713317"}]},{"database":"GO","id":"GO:1902201","properties":[{"key":"GoTerm","value":"P:negative regulation of bacterial-type flagellum-dependent cell motility"},{"key":"GoEvidenceType","value":"IBA:GO_Central"}]},{"database":"GO","id":"GO:1900233","properties":[{"key":"GoTerm","value":"P:positive regulation of single-species biofilm formation on inanimate substrate"},{"key":"GoEvidenceType","value":"IMP:EcoCyc"}],"evidences":[{"evidenceCode":"ECO:0000315","source":"PubMed","id":"27402625"}]},{"database":"CDD","id":"cd01949","properties":[{"key":"EntryName","value":"GGDEF"},{"key":"MatchStatus","value":"1"}]},{"database":"FunFam","id":"3.30.70.270:FF:000035","properties":[{"key":"EntryName","value":"Diguanylate cyclase YdeH"},{"key":"MatchStatus","value":"1"}]},{"database":"Gene3D","id":"3.30.70.270","properties":[{"key":"EntryName","value":"-"},{"key":"MatchStatus","value":"1"}]},{"database":"Gene3D","id":"1.20.120.30","properties":[{"key":"EntryName","value":"Aspartate receptor, ligand-binding domain"},{"key":"MatchStatus","value":"1"}]},{"database":"InterPro","id":"IPR025991","properties":[{"key":"EntryName","value":"Chemoreceptor_zinc-bind_dom"}]},{"database":"InterPro","id":"IPR050469","properties":[{"key":"EntryName","value":"Diguanylate_Cyclase"}]},{"database":"InterPro","id":"IPR000160","properties":[{"key":"EntryName","value":"GGDEF_dom"}]},{"database":"InterPro","id":"IPR029787","properties":[{"key":"EntryName","value":"Nucleotide_cyclase"}]},{"database":"InterPro","id":"IPR043128","properties":[{"key":"EntryName","value":"Rev_trsase/Diguanyl_cyclase"}]},{"database":"NCBIfam","id":"TIGR00254","properties":[{"key":"EntryName","value":"GGDEF"},{"key":"MatchStatus","value":"1"}]},{"database":"NCBIfam","id":"NF007380","properties":[{"key":"EntryName","value":"PRK09894.1"},{"key":"MatchStatus","value":"1"}]},{"database":"PANTHER","id":"PTHR45138:SF9","properties":[{"key":"EntryName","value":"DIGUANYLATE CYCLASE DGCM-RELATED"},{"key":"MatchStatus","value":"1"}]},{"database":"PANTHER","id":"PTHR45138","properties":[{"key":"EntryName","value":"REGULATORY COMPONENTS OF SENSORY TRANSDUCTION SYSTEM"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF13682","properties":[{"key":"EntryName","value":"CZB"},{"key":"MatchStatus","value":"1"}]},{"database":"Pfam","id":"PF00990","properties":[{"key":"EntryName","value":"GGDEF"},{"key":"MatchStatus","value":"1"}]},{"database":"SMART","id":"SM00267","properties":[{"key":"EntryName","value":"GGDEF"},{"key":"MatchStatus","value":"1"}]},{"database":"SUPFAM","id":"SSF55073","properties":[{"key":"EntryName","value":"Nucleotide cyclase"},{"key":"MatchStatus","value":"1"}]},{"database":"PROSITE","id":"PS50887","properties":[{"key":"EntryName","value":"GGDEF"},{"key":"MatchStatus","value":"1"}]}],"sequence":{"value":"MIKKTTEIDAILLNLNKAIDAHYQWLVSMFHSVVARDASKPEITDNHSYGLCQFGRWIDHLGPLDNDELPYVRLMDSAHQHMHNCGRELMLAIVENHWQDAHFDAFQEGLLSFTAALTDYKIYLLTIRSNMDVLTGLPGRRVLDESFDHQLRNAEPLNLYLMLLDIDRFKLVNDTYGHLIGDVVLRTLATYLASWTRDYETVYRYGGEEFIIIVKAANDEEACRAGVRICQLVDNHAITHSEGHINITVTAGVSRAFPEEPLDVVIGRADRAMYEGKQTGRNRCMFIDEQNVINRV","length":296,"molWeight":33863,"crc64":"7B6884E6B8A6D8D8","md5":"7C35F953FBD5E02085CA5A182DDBFCF0"},"extraAttributes":{"countByCommentType":{"FUNCTION":1,"CATALYTIC ACTIVITY":1,"COFACTOR":1,"ACTIVITY REGULATION":1,"BIOPHYSICOCHEMICAL PROPERTIES":1,"PATHWAY":1,"SUBUNIT":1,"INTERACTION":1,"INDUCTION":1,"DOMAIN":1,"DISRUPTION PHENOTYPE":1,"SEQUENCE CAUTION":1},"countByFeatureType":{"Chain":1,"Domain":1,"Active site":1,"Binding site":14,"Site":1,"Mutagenesis":5,"Helix":11,"Turn":2,"Beta strand":8},"uniParcId":"UPI0000047C97"}}