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Crystal structure of human GDP-D-mannose 4,6-dehydratase (E157Q) in complex with GDP-Man

Source organism: Homo sapiens
Biochemical function: NADP+ binding
Biological process: 'de novo' GDP-L-fucose biosynthetic process
Cellular component: extracellular exosome

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EC 4.2.1.47: GDP-mannose 4,6-dehydratase

Reaction catalysed:
GDP-alpha-D-mannose = GDP-4-dehydro-alpha-D-rhamnose + H(2)O
Systematic name:
GDP-alpha-D-mannose 4,6-hydro-lyase (GDP-4-dehydro-6-deoxy-alpha-D-mannose-forming)
Alternative Name(s):
  • GDP-D-mannose 4,6-dehydratase
  • GDP-D-mannose dehydratase
  • GDP-mannose 4,6-hydro-lyase
  • GDP-mannose 4,6-hydro-lyase (GDP-4-dehydro-6-deoxy-D-mannose-forming)
  • GDPmannose 4,6-dehydratase
  • Gmd
  • Guanosine 5'-diphosphate-D-mannose oxidoreductase
  • Guanosine diphosphomannose 4,6-dehydratase
  • Guanosine diphosphomannose oxidoreductase

GO terms

Sequence family

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

InterPro InterPro annotations
IPR006368
Domain description: GDP-mannose 4,6-dehydratase
Occurring in:
  1. GDP-mannose 4,6 dehydratase
IPR016040
Domain description: NAD(P)-binding domain
Occurring in:
  1. GDP-mannose 4,6 dehydratase
IPR036291
Domain description: NAD(P)-binding domain superfamily
Occurring in:
  1. GDP-mannose 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. GDP-mannose 4,6 dehydratase
The deposited structure of PDB entry 6gpk contains 4 copies of CATH domain 3.90.25.10 (UDP-galactose 4-epimerase; domain 1) in GDP-mannose 4,6 dehydratase. 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. GDP-mannose 4,6 dehydratase
The deposited structure of PDB entry 6gpk contains 4 copies of CATH domain 3.40.50.720 (Rossmann fold) in GDP-mannose 4,6 dehydratase. Showing 1 copy in chain A.

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