ID   RUTE_ECOLI              Reviewed;         196 AA.
AC   P75894;
DT   02-MAY-2002, integrated into UniProtKB/Swiss-Prot.
DT   01-FEB-1997, sequence version 1.
DT   03-AUG-2022, entry version 136.
DE   RecName: Full=Probable malonic semialdehyde reductase RutE;
DE            EC=1.1.1.298;
GN   Name=rutE; Synonyms=ycdI; OrderedLocusNames=b1008, JW0993;
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=8905232; DOI=10.1093/dnares/3.3.137;
RA   Oshima T., Aiba H., Baba T., Fujita K., Hayashi K., Honjo A., Ikemoto K.,
RA   Inada T., Itoh T., Kajihara M., Kanai K., Kashimoto K., Kimura S.,
RA   Kitagawa M., Makino K., Masuda S., Miki T., Mizobuchi K., Mori H.,
RA   Motomura K., Nakamura Y., Nashimoto H., Nishio Y., Saito N., Sampei G.,
RA   Seki Y., Tagami H., Takemoto K., Wada C., Yamamoto Y., Yano M.,
RA   Horiuchi T.;
RT   "A 718-kb DNA sequence of the Escherichia coli K-12 genome corresponding to
RT   the 12.7-28.0 min region on the linkage map.";
RL   DNA Res. 3:137-155(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   INDUCTION.
RX   PubMed=11121068; DOI=10.1073/pnas.97.26.14674;
RA   Zimmer D.P., Soupene E., Lee H.L., Wendisch V.F., Khodursky A.B.,
RA   Peter B.J., Bender R.A., Kustu S.;
RT   "Nitrogen regulatory protein C-controlled genes of Escherichia coli:
RT   scavenging as a defense against nitrogen limitation.";
RL   Proc. Natl. Acad. Sci. U.S.A. 97:14674-14679(2000).
RN   [5]
RP   FUNCTION IN PYRIMIDINE CATABOLISM, DISRUPTION PHENOTYPE, AND NOMENCLATURE.
RC   STRAIN=K12 / MG1655 / ATCC 47076;
RX   PubMed=16540542; DOI=10.1073/pnas.0600521103;
RA   Loh K.D., Gyaneshwar P., Markenscoff Papadimitriou E., Fong R., Kim K.-S.,
RA   Parales R., Zhou Z., Inwood W., Kustu S.;
RT   "A previously undescribed pathway for pyrimidine catabolism.";
RL   Proc. Natl. Acad. Sci. U.S.A. 103:5114-5119(2006).
RN   [6]
RP   INDUCTION.
RX   PubMed=17919280; DOI=10.1111/j.1365-2958.2007.05954.x;
RA   Shimada T., Hirao K., Kori A., Yamamoto K., Ishihama A.;
RT   "RutR is the uracil/thymine-sensing master regulator of a set of genes for
RT   synthesis and degradation of pyrimidines.";
RL   Mol. Microbiol. 66:744-757(2007).
RN   [7]
RP   DISRUPTION PHENOTYPE.
RX   PubMed=20400551; DOI=10.1128/jb.00201-10;
RA   Kim K.S., Pelton J.G., Inwood W.B., Andersen U., Kustu S., Wemmer D.E.;
RT   "The Rut pathway for pyrimidine degradation: novel chemistry and toxicity
RT   problems.";
RL   J. Bacteriol. 192:4089-4102(2010).
CC   -!- FUNCTION: May reduce toxic product malonic semialdehyde to 3-
CC       hydroxypropionic acid, which is excreted. RutE is apparently
CC       supplemented by YdfG. Required in vivo, but not in vitro in pyrimidine
CC       nitrogen degradation. {ECO:0000269|PubMed:16540542}.
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=3-hydroxypropanoate + NADP(+) = 3-oxopropanoate + H(+) +
CC         NADPH; Xref=Rhea:RHEA:26438, ChEBI:CHEBI:15378, ChEBI:CHEBI:16510,
CC         ChEBI:CHEBI:33190, ChEBI:CHEBI:57783, ChEBI:CHEBI:58349;
CC         EC=1.1.1.298;
CC   -!- COFACTOR:
CC       Name=FMN; Xref=ChEBI:CHEBI:58210; Evidence={ECO:0000305};
CC   -!- INDUCTION: Up-regulated by the nitrogen regulatory protein C (NtrC also
CC       called GlnG) and repressed by RutR. {ECO:0000269|PubMed:11121068,
CC       ECO:0000269|PubMed:17919280}.
CC   -!- DISRUPTION PHENOTYPE: Cells lacking this gene lose the ability to
CC       utilize pyrimidine nucleosides and bases as the sole source of nitrogen
CC       at room temperature. {ECO:0000269|PubMed:16540542,
CC       ECO:0000269|PubMed:20400551}.
CC   -!- MISCELLANEOUS: The Rut pathway degrades exogenous pyrimidines as the
CC       sole nitrogen source at room temperature but not at 37 degrees Celsius,
CC       a restriction that is apparently a consequence of an inadequate ability
CC       to remove toxic malonic semialdehyde at the higher temperature
CC       (RutE/YdfG function).
CC   -!- SIMILARITY: Belongs to the nitroreductase family. HadB/RutE subfamily.
CC       {ECO:0000305}.
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DR   EMBL; U00096; AAC74093.1; -; Genomic_DNA.
DR   EMBL; AP009048; BAA35775.1; -; Genomic_DNA.
DR   PIR; F64842; F64842.
DR   RefSeq; NP_415528.1; NC_000913.3.
DR   RefSeq; WP_001001176.1; NZ_SSZK01000002.1.
DR   AlphaFoldDB; P75894; -.
DR   SMR; P75894; -.
DR   STRING; 511145.b1008; -.
DR   PaxDb; P75894; -.
DR   PRIDE; P75894; -.
DR   EnsemblBacteria; AAC74093; AAC74093; b1008.
DR   EnsemblBacteria; BAA35775; BAA35775; BAA35775.
DR   GeneID; 946591; -.
DR   KEGG; ecj:JW0993; -.
DR   KEGG; eco:b1008; -.
DR   PATRIC; fig|1411691.4.peg.1263; -.
DR   EchoBASE; EB3615; -.
DR   eggNOG; COG0778; Bacteria.
DR   HOGENOM; CLU_084441_0_0_6; -.
DR   InParanoid; P75894; -.
DR   OMA; LMVVNIG; -.
DR   PhylomeDB; P75894; -.
DR   BioCyc; EcoCyc:G6519-MON; -.
DR   BioCyc; MetaCyc:G6519-MON; -.
DR   PRO; PR:P75894; -.
DR   Proteomes; UP000000318; Chromosome.
DR   Proteomes; UP000000625; Chromosome.
DR   GO; GO:0035527; F:3-hydroxypropionate dehydrogenase (NADP+) activity; IEA:UniProtKB-UniRule.
DR   GO; GO:0010181; F:FMN binding; IDA:EcoCyc.
DR   GO; GO:0006974; P:cellular response to DNA damage stimulus; IEP:EcoliWiki.
DR   GO; GO:0019740; P:nitrogen utilization; IDA:UniProtKB.
DR   GO; GO:0006208; P:pyrimidine nucleobase catabolic process; IMP:EcoCyc.
DR   GO; GO:0006212; P:uracil catabolic process; IDA:UniProtKB.
DR   CDD; cd02148; RutE-like; 1.
DR   Gene3D; 3.40.109.10; -; 1.
DR   HAMAP; MF_01204; Oxidoreductase_RutE_HadB; 1.
DR   InterPro; IPR029479; Nitroreductase.
DR   InterPro; IPR000415; Nitroreductase-like.
DR   InterPro; IPR023936; RutE-like.
DR   Pfam; PF00881; Nitroreductase; 1.
DR   SUPFAM; SSF55469; SSF55469; 1.
PE   1: Evidence at protein level;
KW   Flavoprotein; FMN; NADP; Oxidoreductase; Reference proteome.
FT   CHAIN           1..196
FT                   /note="Probable malonic semialdehyde reductase RutE"
FT                   /id="PRO_0000072729"
SQ   SEQUENCE   196 AA;  21570 MW;  A28A2B10CEB07FFF CRC64;
     MNEAVSPGAL STLFTDARTH NGWRETPVSD ETLREIYALM KWGPTSANCS PARIVFTRTA
     EGKERLRPAL SSGNLQKTLT APVTAIVAWD SEFYERLPLL FPHGDARSWF TSSPQLAEET
     AFRNSSMQAA YLIVACRALG LDTGPMSGFD RQHVDDAFFT GSTLKSNLLI NIGYGDSSKL
     YARLPRLSFE EACGLL