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X-ray structure of KdnB, 3-deoxy-alpha-D-manno-octulosonate 8-oxidase, from Shewanella oneidensis

Source organism: Shewanella oneidensis MR-1
Biochemical function: metal ion binding
Biological process: lipopolysaccharide biosynthetic process
Cellular component: not assigned

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EC 1.1.3.48: 3-deoxy-alpha-D-manno-octulosonate 8-oxidase

Reaction catalysed:
3-deoxy-alpha-D-manno-octulopyranosonate + O(2) = 3,8-dideoxy-8-oxo-alpha-D-manno-octulosonate + H(2)O(2)
Systematic name:
3-deoxy-alpha-D-manno-octulopyranosonate:oxygen 8-oxidoreductase
Alternative Name(s):
  • KdnB (gene name)

GO terms

Biochemical function:
Biological process:
Cellular component:
  • not assigned

Sequence family

Pfam Protein family (Pfam)
PF00465
Domain description: Iron-containing alcohol dehydrogenase
Occurring in:
  1. 3-deoxy-alpha-D-manno-octulosonate 8-oxidase
The deposited structure of PDB entry 5k8c contains 1 copy of Pfam domain PF00465 (Iron-containing alcohol dehydrogenase ) in 3-deoxy-alpha-D-manno-octulosonate 8-oxidase. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR001670
Domain description: Alcohol dehydrogenase, iron-type/glycerol dehydrogenase GldA
Occurring in:
  1. 3-deoxy-alpha-D-manno-octulosonate 8-oxidase
IPR039697
Domain description: Iron-type alcohol dehydrogenase-like
Occurring in:
  1. 3-deoxy-alpha-D-manno-octulosonate 8-oxidase

Structure domains

CATH CATH domains
1.20.1090.10
Class: Mainly Alpha
Architecture: Up-down Bundle
Topology: Dehydroquinate synthase-like, alpha domain
Homology: Dehydroquinate synthase-like - alpha domain
Occurring in:
  1. 3-deoxy-alpha-D-manno-octulosonate 8-oxidase
The deposited structure of PDB entry 5k8c contains 1 copy of CATH domain 1.20.1090.10 (Dehydroquinate synthase-like, alpha domain) in 3-deoxy-alpha-D-manno-octulosonate 8-oxidase. Showing 1 copy in chain A.
3.40.50.1970
Class: Alpha Beta
Architecture: 3-Layer(aba) Sandwich
Topology: Rossmann fold
Homology: Rossmann fold
Occurring in:
  1. 3-deoxy-alpha-D-manno-octulosonate 8-oxidase
The deposited structure of PDB entry 5k8c contains 1 copy of CATH domain 3.40.50.1970 (Rossmann fold) in 3-deoxy-alpha-D-manno-octulosonate 8-oxidase. Showing 1 copy in chain A.

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