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Crystal structure of dTDP-6-deoxy-L-lyxo-4-hexulose reductase (RmlD) in complex with NADPH

Source organism: Salmonella enterica subsp. enterica serovar Typhimurium
Biochemical function: metal ion binding
Biological process: extracellular polysaccharide biosynthetic process
Cellular component: cytosol

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EC 1.1.1.133: dTDP-4-dehydrorhamnose reductase

Reaction catalysed:
dTDP-beta-L-rhamnose + NADP(+) = dTDP-4-dehydro-beta-L-rhamnose + NADPH
Systematic name:
dTDP-beta-L-rhamnose:NADP(+) 4-oxidoreductase
Alternative Name(s):
  • TDP-4-keto-rhamnose reductase
  • Thymidine diphospho-4-ketorhamnose reductase
  • dTDP-4-keto-L-rhamnose reductase
  • dTDP-4-ketorhamnose reductase
  • dTDP-6-deoxy-L-mannose dehydrogenase
  • dTDP-6-deoxy-L-mannose:NADP(+) 4-oxidoreductase
  • dTDP-6-deoxy-beta-L-mannose:NADP(+) 4-oxidoreductase

GO terms

Sequence family

Pfam Protein family (Pfam)
PF04321
Domain description: RmlD substrate binding domain
Occurring in:
  1. dTDP-4-dehydrorhamnose reductase
The deposited structure of PDB entry 1kc1 contains 1 copy of Pfam domain PF04321 (RmlD substrate binding domain) in dTDP-4-dehydrorhamnose reductase. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR005913
Domain description: dTDP-4-dehydrorhamnose reductase family
Occurring in:
  1. dTDP-4-dehydrorhamnose reductase
IPR036291
Domain description: NAD(P)-binding domain superfamily
Occurring in:
  1. dTDP-4-dehydrorhamnose reductase
IPR029903
Domain description: RmlD-like substrate binding domain
Occurring in:
  1. dTDP-4-dehydrorhamnose reductase

Structure domains

CATH CATH domains
3.90.25.10
Class: Alpha Beta
Architecture: Alpha-Beta Complex
Topology: UDP-galactose 4-epimerase; domain 1
Homology: UDP-galactose 4-epimerase, domain 1
Occurring in:
  1. dTDP-4-dehydrorhamnose reductase
The deposited structure of PDB entry 1kc1 contains 1 copy of CATH domain 3.90.25.10 (UDP-galactose 4-epimerase; domain 1) in dTDP-4-dehydrorhamnose reductase. Showing 1 copy in chain A.
3.40.50.720
Class: Alpha Beta
Architecture: 3-Layer(aba) Sandwich
Topology: Rossmann fold
Homology: NAD(P)-binding Rossmann-like Domain
Occurring in:
  1. dTDP-4-dehydrorhamnose reductase
The deposited structure of PDB entry 1kc1 contains 1 copy of CATH domain 3.40.50.720 (Rossmann fold) in dTDP-4-dehydrorhamnose reductase. Showing 1 copy in chain A.
SCOP SCOP annotation
51751
Class: Alpha and beta proteins (a/b)
Fold: NAD(P)-binding Rossmann-fold domains
Superfamily: NAD(P)-binding Rossmann-fold domains
Occurring in:
  1. dTDP-4-dehydrorhamnose reductase
The deposited structure of PDB entry 1kc1 contains 1 copy of SCOP domain 51751 (Tyrosine-dependent oxidoreductases) in dTDP-4-dehydrorhamnose reductase. Showing 1 copy in chain A.

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