› 3mbc

X-ray diffraction
1.9Å resolution

Crystal structure of monomeric isocitrate dehydrogenase from Corynebacterium glutamicum in complex with NADP

Released:
DOI: 10.2210/pdb3mbc/pdb
PDB entry 3mbc coloured by chain, front view.
PDB entry 3mbc coloured by chain, side view.
PDB entry 3mbc coloured by chain, top view.
Source organism: Corynebacterium glutamicum ATCC 13032
Primary publication:
Structure of a highly NADP+-specific isocitrate dehydrogenase.
Sidhu NS, Delbaere LT, Sheldrick GM
Acta Crystallogr D Biol Crystallogr 67 856-69 (2011)
PMID: 21931217

Function and Biology Details

Reaction catalysed: 
(1a) isocitrate + NADP(+) = 2-oxalosuccinate + NADPH
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-156146 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Isocitrate dehydrogenase [NADP] Chains: A, B
Molecule details ›
Chains: A, B
Length: 738 amino acids
Theoretical weight: 80.17 KDa
Source organism: Corynebacterium glutamicum ATCC 13032
UniProt:
  • Canonical: P50216 (Residues: 1-738; Coverage: 100%)
Gene names: Cgl0664, cg0766, icd
Sequence domains: Monomeric isocitrate dehydrogenase

Ligands and Environments


Cofactor: Ligand NAP 1 x NAP
1 bound ligand:
Ligand MG 2 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CLSI BEAMLINE 08ID-1
Spacegroup: C2
Unit cell:
a: 128.84Å b: 52.73Å c: 236.37Å
α: 90° β: 103.41° γ: 90°
R-values:
R R work R free
0.191 0.189 0.229

Quick links

Citations

6 citation in other articles

Induced fit and the catalytic mechanism of isocitrate dehydrogenase.
Gonçalves et al. (2012)
5 more

1 mention without citation

A structure of substrate-bound Synaptojanin1 provides new insights in its mechanism and the effect of disease mutations.
Paesmans et al. (2020)