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The crystal structure of dTDP-D-glucose 4,6-dehydratase (RmlB) from Streptococcus suis with dTDP-D-glucose bound

Source organism: Streptococcus suis
Biochemical function: UDP-glucose 4,6-dehydratase activity
Biological process: flavonol biosynthetic process
Cellular component: not assigned

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EC 4.2.1.46: dTDP-glucose 4,6-dehydratase

Reaction catalysed:
dTDP-alpha-D-glucose = dTDP-4-dehydro-6-deoxy-alpha-D-glucose + H(2)O
Systematic name:
dTDP-alpha-D-glucose 4,6-hydro-lyase (dTDP-4-dehydro-6-deoxy-D-glucose-forming)
Alternative Name(s):
  • TDP-glucose oxidoreductase
  • Thymidine diphosphoglucose oxidoreductase
  • dTDP-glucose 4,6-hydro-lyase
  • dTDP-glucose 4,6-hydro-lyase (dTDP-4-dehydro-6-deoxy-D-glucose-forming)
  • dTDPglucose 4,6-dehydratase
  • dTDPglucose 4,6-hydro-lyase

GO terms

Sequence family

Pfam Protein family (Pfam)
PF16363
Domain description: GDP-mannose 4,6 dehydratase
Occurring in:
  1. dTDP-glucose 4,6-dehydratase
The deposited structure of PDB entry 1ker contains 2 copies of Pfam domain PF16363 (GDP-mannose 4,6 dehydratase) in dTDP-glucose 4,6-dehydratase. Showing 1 copy in chain B.

InterPro InterPro annotations
IPR005888
Domain description: dTDP-glucose 4,6-dehydratase
Occurring in:
  1. dTDP-glucose 4,6-dehydratase
IPR016040
Domain description: NAD(P)-binding domain
Occurring in:
  1. dTDP-glucose 4,6-dehydratase
IPR036291
Domain description: NAD(P)-binding domain superfamily
Occurring in:
  1. dTDP-glucose 4,6-dehydratase

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-glucose 4,6-dehydratase
The deposited structure of PDB entry 1ker contains 2 copies of CATH domain 3.90.25.10 (UDP-galactose 4-epimerase; domain 1) in dTDP-glucose 4,6-dehydratase. Showing 1 copy in chain B.
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-glucose 4,6-dehydratase
The deposited structure of PDB entry 1ker contains 2 copies of CATH domain 3.40.50.720 (Rossmann fold) in dTDP-glucose 4,6-dehydratase. Showing 1 copy in chain B.
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-glucose 4,6-dehydratase
The deposited structure of PDB entry 1ker contains 2 copies of SCOP domain 51751 (Tyrosine-dependent oxidoreductases) in dTDP-glucose 4,6-dehydratase. Showing 1 copy in chain B.

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