› › Function and Biology

Crystal Structure of ornithine 4,5 aminomutase in complex with ornithine (Anaerobic)

Source organism: Acetoanaerobium sticklandii
Biochemical function: D-ornithine 4,5-aminomutase activity
Biological process: not assigned
Cellular component: not assigned

Quick links

EC 5.4.3.5: D-ornithine 4,5-aminomutase

Reaction catalysed:
D-ornithine = (2R,4S)-2,4-diaminopentanoate
Systematic name:
D-ornithine 4,5-aminomutase
Alternative Name(s):
  • D-alpha-ornithine 5,4-aminomutase
  • D-ornithine aminomutase

GO terms

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

Sequence families

Pfam Protein families (Pfam)
PF16552
Domain description: D-ornithine 4,5-aminomutase alpha-subunit
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit alpha
The deposited structure of PDB entry 3koz contains 4 copies of Pfam domain PF16552 (D-ornithine 4,5-aminomutase alpha-subunit) in D-ornithine 4,5-aminomutase subunit alpha. Showing 1 copy in chain B [auth E].

PF02310
Domain description: B12 binding domain
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
The deposited structure of PDB entry 3koz contains 4 copies of Pfam domain PF02310 (B12 binding domain) in D-ornithine 4,5-aminomutase subunit beta. Showing 1 copy in chain A.

PF16554
Domain description: Dimerisation domain of d-ornithine 4,5-aminomutase
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
The deposited structure of PDB entry 3koz contains 4 copies of Pfam domain PF16554 (Dimerisation domain of d-ornithine 4,5-aminomutase) in D-ornithine 4,5-aminomutase subunit beta. Showing 1 copy in chain A.

PF09043
Domain description: D-Lysine 5,6-aminomutase TIM-barrel domain of alpha subunit
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
The deposited structure of PDB entry 3koz contains 4 copies of Pfam domain PF09043 (D-Lysine 5,6-aminomutase TIM-barrel domain of alpha subunit) in D-ornithine 4,5-aminomutase subunit beta. Showing 1 copy in chain A.

InterPro InterPro annotations
IPR006158
Domain description: Cobalamin (vitamin B12)-binding domain
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
IPR015130
Domain description: D-Lysine 5,6-aminomutase alpha subunit
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
  2. D-ornithine 4,5-aminomutase subunit alpha
IPR016176
Domain description: Cobalamin (vitamin B12)-dependent enzyme, catalytic
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
  2. D-ornithine 4,5-aminomutase subunit alpha
IPR038625
Domain description: Rhodococcus equi virulence-associated superfamily
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
IPR036724
Domain description: Cobalamin-binding domain superfamily
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
IPR028991
Domain description: D-lysine 5,6-aminomutase beta subunit KamE, N-terminal
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
IPR036843
Domain description: D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain superfamily
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
IPR037086
Domain description: D-Lysine 5,6-aminomutase alpha subunit superfamily
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta

Structure domains

CATH CATH domains
1.10.8.1000
Class: Mainly Alpha
Architecture: Orthogonal Bundle
Topology: Helicase, Ruva Protein; domain 3
Homology: Ornithine 4,5 aminomutase S component, alpha subunit-like
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit alpha
The deposited structure of PDB entry 3koz contains 4 copies of CATH domain 1.10.8.1000 (Helicase, Ruva Protein; domain 3) in D-ornithine 4,5-aminomutase subunit alpha. Showing 1 copy in chain B [auth E].
6.10.250.2220
Class: Special
Architecture: Helix non-globular
Topology: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Homology: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit alpha
The deposited structure of PDB entry 3koz contains 4 copies of CATH domain 6.10.250.2220 (Single alpha-helices involved in coiled-coils or other helix-helix interfaces) in D-ornithine 4,5-aminomutase subunit alpha. Showing 1 copy in chain B [auth E].
3.40.50.280
Class: Alpha Beta
Architecture: 3-Layer(aba) Sandwich
Topology: Rossmann fold
Homology: Cobalamin-binding domain
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
The deposited structure of PDB entry 3koz contains 4 copies of CATH domain 3.40.50.280 (Rossmann fold) in D-ornithine 4,5-aminomutase subunit beta. Showing 1 copy in chain A.
3.30.30.60
Class: Alpha Beta
Architecture: 2-Layer Sandwich
Topology: Defensin A-like
Homology: D-lysine 5,6-aminomutase beta subunit KamE, N-terminal domain
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
The deposited structure of PDB entry 3koz contains 4 copies of CATH domain 3.30.30.60 (Defensin A-like) in D-ornithine 4,5-aminomutase subunit beta. Showing 1 copy in chain A.
3.20.20.440
Class: Alpha Beta
Architecture: Alpha-Beta Barrel
Topology: TIM Barrel
Homology: D-Lysine 5,6-aminomutase alpha subunit
Occurring in:
  1. D-ornithine 4,5-aminomutase subunit beta
The deposited structure of PDB entry 3koz contains 4 copies of CATH domain 3.20.20.440 (TIM Barrel) in D-ornithine 4,5-aminomutase subunit beta. Showing 1 copy in chain A.

Quick links