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Protein

dTDP-4-dehydrorhamnose reductase

Gene

rfbD

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Protein inferred from homologyi

Functioni

Catalyzes the reduction of dTDP-6-deoxy-L-lyxo-4-hexulose to yield dTDP-L-rhamnose. RmlD uses NADH and NADPH nearly equally well (By similarity).By similarity

Catalytic activityi

dTDP-beta-L-rhamnose + NADP+ = dTDP-4-dehydro-beta-L-rhamnose + NADPH.

Cofactori

Mg2+By similarityNote: Binds 1 Mg2+ ion per monomer.By similarity

Pathwayi

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei12 – 121NAD; via amide nitrogenBy similarity
Binding sitei102 – 1021NADP; via carbonyl oxygenBy similarity
Binding sitei153 – 1531Substrate; via amide nitrogenBy similarity
Binding sitei154 – 1541NAD; via amide nitrogenBy similarity
Binding sitei223 – 2231SubstrateBy similarity
Binding sitei260 – 2601SubstrateBy similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Nucleotide bindingi7 – 115NADBy similarity
Nucleotide bindingi11 – 122NADPBy similarity
Nucleotide bindingi30 – 312NADBy similarity
Nucleotide bindingi39 – 402NAD/NADPBy similarity
Nucleotide bindingi62 – 654NADBy similarity
Nucleotide bindingi63 – 653NADPBy similarity
Nucleotide bindingi128 – 1325NAD/NADPBy similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Oxidoreductase

Keywords - Biological processi

Lipopolysaccharide biosynthesis

Keywords - Ligandi

Magnesium, Metal-binding, NADP

Enzyme and pathway databases

BioCyciEcoCyc:DTDPDEHYRHAMREDUCT-MONOMER.
ECOL316407:JW2025-MONOMER.
MetaCyc:DTDPDEHYRHAMREDUCT-MONOMER.
UniPathwayiUPA00124.
UPA00281.

Names & Taxonomyi

Protein namesi
Recommended name:
dTDP-4-dehydrorhamnose reductase (EC:1.1.1.133)
Alternative name(s):
dTDP-4-keto-L-rhamnose reductase
dTDP-6-deoxy-L-lyxo-4-hexulose reductase
dTDP-6-deoxy-L-mannose dehydrogenase
dTDP-L-rhamnose synthase
Gene namesi
Name:rfbD
Synonyms:rmlD
Ordered Locus Names:b2040, JW2025
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
ProteomesiUP000000318 Componenti: Chromosome UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG12411. rfbD.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 299299dTDP-4-dehydrorhamnose reductasePRO_0000207984Add
BLAST

Proteomic databases

PRIDEiP37760.

Expressioni

Gene expression databases

GenevestigatoriP37760.

Interactioni

Subunit structurei

Homodimer.By similarity

Protein-protein interaction databases

IntActiP37760. 5 interactions.
STRINGi511145.b2040.

Structurei

3D structure databases

ProteinModelPortaliP37760.
SMRiP37760. Positions 1-297.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni104 – 1052Substrate bindingBy similarity

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000227712.
InParanoidiP37760.
KOiK00067.
OMAiIRTAWVY.
OrthoDBiEOG6HTP2V.
PhylomeDBiP37760.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR005913. dTDP_dehydrorham_reduct.
IPR016040. NAD(P)-bd_dom.
IPR029900. RmlD.
IPR029903. RmlD-like-bd.
[Graphical view]
PANTHERiPTHR10491. PTHR10491. 1 hit.
PTHR10491:SF5. PTHR10491:SF5. 1 hit.
PfamiPF04321. RmlD_sub_bind. 1 hit.
[Graphical view]
TIGRFAMsiTIGR01214. rmlD. 1 hit.

Sequencei

Sequence statusi: Complete.

P37760-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNILLFGKTG QVGWELQRAL APLGNLIAFD VHSTDYCGDF SNPEGVAETV
60 70 80 90 100
RSIRPDIIVN AAAHTAVDKA ESEPEFAQLI NATSVEAIAK AANEVGAWVI
110 120 130 140 150
HYSTDYVFPG NGDMPWLETD ATAPLNVYGE TKLAGEKALQ EYCAKHLIFR
160 170 180 190 200
TSWVYAGKGN NFAKTMLRLA KEREELAVIN DQFGAPTGAE LLADCTAHAI
210 220 230 240 250
RVALNKPDVA GLYHLVASGT TTWYDYAALV FEEARKAGIP LALNKLNAVP
260 270 280 290
TTAYPTPARR PHNSRLNTEK FQQNFALVLP DWQVGVKRML NELFTTTAI
Length:299
Mass (Da):32,694
Last modified:November 1, 1997 - v2
Checksum:i1D7C992FA5017AD1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U09876 Genomic DNA. Translation: AAB88399.1.
U00096 Genomic DNA. Translation: AAC75101.1.
AP009048 Genomic DNA. Translation: BAA15882.1.
PIRiG64969.
RefSeqiNP_416544.1. NC_000913.3.

Genome annotation databases

EnsemblBacteriaiAAC75101; AAC75101; b2040.
BAA15882; BAA15882; BAA15882.
GeneIDi947117.
KEGGiecj:Y75_p2003.
eco:b2040.
PATRICi32119413. VBIEscCol129921_2117.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U09876 Genomic DNA. Translation: AAB88399.1.
U00096 Genomic DNA. Translation: AAC75101.1.
AP009048 Genomic DNA. Translation: BAA15882.1.
PIRiG64969.
RefSeqiNP_416544.1. NC_000913.3.

3D structure databases

ProteinModelPortaliP37760.
SMRiP37760. Positions 1-297.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP37760. 5 interactions.
STRINGi511145.b2040.

Proteomic databases

PRIDEiP37760.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC75101; AAC75101; b2040.
BAA15882; BAA15882; BAA15882.
GeneIDi947117.
KEGGiecj:Y75_p2003.
eco:b2040.
PATRICi32119413. VBIEscCol129921_2117.

Organism-specific databases

EchoBASEiEB2310.
EcoGeneiEG12411. rfbD.

Phylogenomic databases

HOGENOMiHOG000227712.
InParanoidiP37760.
KOiK00067.
OMAiIRTAWVY.
OrthoDBiEOG6HTP2V.
PhylomeDBiP37760.

Enzyme and pathway databases

UniPathwayiUPA00124.
UPA00281.
BioCyciEcoCyc:DTDPDEHYRHAMREDUCT-MONOMER.
ECOL316407:JW2025-MONOMER.
MetaCyc:DTDPDEHYRHAMREDUCT-MONOMER.

Miscellaneous databases

PROiP37760.

Gene expression databases

GenevestigatoriP37760.

Family and domain databases

Gene3Di3.40.50.720. 1 hit.
InterProiIPR005913. dTDP_dehydrorham_reduct.
IPR016040. NAD(P)-bd_dom.
IPR029900. RmlD.
IPR029903. RmlD-like-bd.
[Graphical view]
PANTHERiPTHR10491. PTHR10491. 1 hit.
PTHR10491:SF5. PTHR10491:SF5. 1 hit.
PfamiPF04321. RmlD_sub_bind. 1 hit.
[Graphical view]
TIGRFAMsiTIGR01214. rmlD. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Structure of the O antigen of Escherichia coli K-12 and the sequence of its rfb gene cluster."
    Stevenson G., Neal B., Liu D., Hobbs M., Packer N.H., Batley M., Redmond J.W., Lindquist L., Reeves P.R.
    J. Bacteriol. 176:4144-4156(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12 / WG1.
  2. Stevenson G.
    Submitted (DEC-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: SEQUENCE REVISION TO 227.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  5. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.

Entry informationi

Entry nameiRMLD_ECOLI
AccessioniPrimary (citable) accession number: P37760
Secondary accession number(s): P76377
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: November 1, 1997
Last modified: May 27, 2015
This is version 119 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.