PDEN_ECOLI
ID PDEN_ECOLI Reviewed; 518 AA.
AC P76446; P77139; Q52613;
DT 01-NOV-1997, integrated into UniProtKB/Swiss-Prot.
DT 01-FEB-1997, sequence version 1.
DT 03-AUG-2022, entry version 140.
DE RecName: Full=Probable cyclic di-GMP phosphodiesterase PdeN {ECO:0000305};
DE EC=3.1.4.52 {ECO:0000250|UniProtKB:P21514};
GN Name=pdeN {ECO:0000303|PubMed:26148715}; Synonyms=rtn;
GN OrderedLocusNames=b2176, JW2164;
OS Escherichia coli (strain K12).
OC Bacteria; Proteobacteria; Gammaproteobacteria; Enterobacterales;
OC Enterobacteriaceae; Escherichia.
OX NCBI_TaxID=83333;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=K12 / W3110 / ATCC 27325 / DSM 5911;
RX PubMed=9097040; DOI=10.1093/dnares/3.6.379;
RA Itoh T., Aiba H., Baba T., Fujita K., Hayashi K., Inada T., Isono K.,
RA Kasai H., Kimura S., Kitakawa M., Kitagawa M., Makino K., Miki T.,
RA Mizobuchi K., Mori H., Mori T., Motomura K., Nakade S., Nakamura Y.,
RA Nashimoto H., Nishio Y., Oshima T., Saito N., Sampei G., Seki Y.,
RA Sivasundaram S., Tagami H., Takeda J., Takemoto K., Wada C., Yamamoto Y.,
RA Horiuchi T.;
RT "A 460-kb DNA sequence of the Escherichia coli K-12 genome corresponding to
RT the 40.1-50.0 min region on the linkage map.";
RL DNA Res. 3:379-392(1996).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=K12 / MG1655 / ATCC 47076;
RX PubMed=9278503; DOI=10.1126/science.277.5331.1453;
RA Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V.,
RA Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F.,
RA Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B.,
RA Shao Y.;
RT "The complete genome sequence of Escherichia coli K-12.";
RL Science 277:1453-1462(1997).
RN [3]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=K12 / W3110 / ATCC 27325 / DSM 5911;
RX PubMed=16738553; DOI=10.1038/msb4100049;
RA Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S.,
RA Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.;
RT "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655
RT and W3110.";
RL Mol. Syst. Biol. 2:E1-E5(2006).
RN [4]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RA Kim C.S., Lee D.W., Chae K.-S., Hwang U.W.;
RT "Structural analysis of an rtn gene isolated from Proteus vulgaris.";
RL Mol. Cells 4:387-391(1994).
RN [5]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 404-518, AND SHOWS THAT SEQUENCE
RP DESCRIBED IN KIM ET AL ORIGINATES FROM E.COLI.
RC STRAIN=K12 / MG1063;
RX PubMed=9079933; DOI=10.1128/jb.179.7.2433-2434.1997;
RA Hall B.G.;
RT "The rtn gene of Proteus vulgaris is actually from Escherichia coli.";
RL J. Bacteriol. 179:2433-2434(1997).
RN [6]
RP SUBCELLULAR LOCATION.
RC STRAIN=K12 / MG1655 / ATCC 47076;
RX PubMed=15919996; DOI=10.1126/science.1109730;
RA Daley D.O., Rapp M., Granseth E., Melen K., Drew D., von Heijne G.;
RT "Global topology analysis of the Escherichia coli inner membrane
RT proteome.";
RL Science 308:1321-1323(2005).
RN [7]
RP INDUCTION, AND RPOS-REPRESSION.
RC STRAIN=K12 / W3110 / ATCC 27325 / DSM 5911;
RX PubMed=19332833; DOI=10.1099/mic.0.024257-0;
RA Sommerfeldt N., Possling A., Becker G., Pesavento C., Tschowri N.,
RA Hengge R.;
RT "Gene expression patterns and differential input into curli fimbriae
RT regulation of all GGDEF/EAL domain proteins in Escherichia coli.";
RL Microbiology 155:1318-1331(2009).
RN [8]
RP NOMENCLATURE.
RX PubMed=26148715; DOI=10.1128/jb.00424-15;
RA Hengge R., Galperin M.Y., Ghigo J.M., Gomelsky M., Green J., Hughes K.T.,
RA Jenal U., Landini P.;
RT "Systematic nomenclature for GGDEF and EAL domain-containing cyclic di-GMP
RT turnover proteins of Escherichia coli.";
RL J. Bacteriol. 198:7-11(2015).
CC -!- FUNCTION: Phosphodiesterase (PDE) that catalyzes the hydrolysis of
CC cyclic-di-GMP (c-di-GMP) to 5'-pGpG. {ECO:0000250|UniProtKB:P21514}.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=cyclic di-3',5'-guanylate + H2O = 5'-
CC phosphoguanylyl(3'->5')guanosine + H(+); Xref=Rhea:RHEA:24902,
CC ChEBI:CHEBI:15377, ChEBI:CHEBI:15378, ChEBI:CHEBI:58754,
CC ChEBI:CHEBI:58805; EC=3.1.4.52;
CC Evidence={ECO:0000250|UniProtKB:P21514};
CC -!- SUBCELLULAR LOCATION: Cell inner membrane
CC {ECO:0000269|PubMed:15919996}; Multi-pass membrane protein
CC {ECO:0000255}.
CC -!- INDUCTION: Expressed at both 28 and 37 degrees Celsius during
CC exponential growth. Repressed by RpoS. {ECO:0000269|PubMed:19332833}.
CC -!- CAUTION: Was originally (Ref.4) thought to originate from Proteus
CC vulgaris, but was shown to originate from E.coli.
CC {ECO:0000305|PubMed:9079933}.
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DR EMBL; U00096; AAC75237.1; -; Genomic_DNA.
DR EMBL; AP009048; BAA15984.1; -; Genomic_DNA.
DR EMBL; U12780; AAA50754.1; -; Genomic_DNA.
DR EMBL; U83404; AAB51508.1; -; Genomic_DNA.
DR PIR; G64986; G64986.
DR RefSeq; NP_416681.1; NC_000913.3.
DR RefSeq; WP_000470560.1; NZ_SSZK01000027.1.
DR AlphaFoldDB; P76446; -.
DR SMR; P76446; -.
DR BioGRID; 4261095; 10.
DR DIP; DIP-10813N; -.
DR STRING; 511145.b2176; -.
DR PaxDb; P76446; -.
DR PRIDE; P76446; -.
DR EnsemblBacteria; AAC75237; AAC75237; b2176.
DR EnsemblBacteria; BAA15984; BAA15984; BAA15984.
DR GeneID; 946695; -.
DR KEGG; ecj:JW2164; -.
DR KEGG; eco:b2176; -.
DR PATRIC; fig|1411691.4.peg.60; -.
DR EchoBASE; EB3830; -.
DR eggNOG; COG2200; Bacteria.
DR HOGENOM; CLU_000445_131_2_6; -.
DR InParanoid; P76446; -.
DR OMA; FLQGYWI; -.
DR PhylomeDB; P76446; -.
DR BioCyc; EcoCyc:G7148-MON; -.
DR PRO; PR:P76446; -.
DR Proteomes; UP000000318; Chromosome.
DR Proteomes; UP000000625; Chromosome.
DR GO; GO:0016021; C:integral component of membrane; IEA:UniProtKB-KW.
DR GO; GO:0005886; C:plasma membrane; IDA:EcoCyc.
DR GO; GO:0071111; F:cyclic-guanylate-specific phosphodiesterase activity; IEA:UniProtKB-EC.
DR CDD; cd01948; EAL; 1.
DR Gene3D; 3.20.20.450; -; 1.
DR InterPro; IPR024744; CSS-motif_dom.
DR InterPro; IPR001633; EAL_dom.
DR InterPro; IPR035919; EAL_sf.
DR Pfam; PF12792; CSS-motif; 1.
DR Pfam; PF00563; EAL; 1.
DR SMART; SM00052; EAL; 1.
DR SUPFAM; SSF141868; SSF141868; 1.
DR PROSITE; PS50883; EAL; 1.
PE 2: Evidence at transcript level;
KW c-di-GMP; Cell inner membrane; Cell membrane; Hydrolase; Membrane;
KW Reference proteome; Transmembrane; Transmembrane helix.
FT CHAIN 1..518
FT /note="Probable cyclic di-GMP phosphodiesterase PdeN"
FT /id="PRO_0000097517"
FT TRANSMEM 16..36
FT /note="Helical"
FT /evidence="ECO:0000255"
FT TRANSMEM 236..256
FT /note="Helical"
FT /evidence="ECO:0000255"
FT DOMAIN 261..514
FT /note="EAL"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00074"
FT CONFLICT 482..518
FT /note="RWLSERGVNFMQGYWISRPLPLDDFVRWLKKPYTPQW -> D (in Ref.
FT 4; no nucleotide entry)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 518 AA; 58588 MW; BABA5768CBC47C41 CRC64;
MFIRAPNFGR KLLLTCIVAG VMIAILVSCL QFLVAWHKHE VKYDTLITDV QKYLDTYFAD
LKSTTDRLQP LTLDTCQQAN PELTARAAFS MNVRTFVLVK DKKTFCSSAT GEMDIPLNEL
IPALDINKNV DMAILPGTPM VPNKPAIVIW YRNPLLKNSG VFAALNLNLT PSLFYSSRQE
DYDGVALIIG NTALSTFSSR LMNVNELTDM PVRETKIAGI PLTVRLYADD WTWNDVWYAF
LLGGMSGTVV GLLCYYLMSV RMRPGREIMT AIKREQFYVA YQPVVDTQAL RVTGLEVLLR
WRHPVAGEIP PDAFINFAES QKMIVPLTQH LFELIARDAA ELEKVLPVGV KFGINIAPDH
LHSESFKADI QKLLTSLPAH HFQIVLEITE RDMLKEQEAT QLFAWLHSVG VEIAIDDFGT
GHSALIYLER FTLDYLKIDR GFINAIGTET ITSPVLDAVL TLAKRLNMLT VAEGVETPEQ
ARWLSERGVN FMQGYWISRP LPLDDFVRWL KKPYTPQW
