› 5yzh

X-ray diffraction
1.99Å resolution

Crystal Structure of Mouse Cytosolic Isocitrate Dehydrogenase

Released:
DOI: 10.2210/pdb5yzh/pdb
PDB entry 5yzh coloured by chain, front view.
PDB entry 5yzh coloured by chain, side view.
PDB entry 5yzh coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
NADP+-dependent cytosolic isocitrate dehydrogenase provides NADPH in the presence of cadmium due to the moderate chelating effect of glutathione.
Cho HJ, Cho HY, Park JW, Kwon OS, Lee HS, Huh TL, Kang BS
J Biol Inorg Chem 23 849-860 (2018)
PMID: 29923039

Function and Biology Details

Reaction catalysed: 
(1a) isocitrate + NADP(+) = 2-oxalosuccinate + NADPH
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-131587 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Isocitrate dehydrogenase [NADP] cytoplasmic Chains: A, B
Molecule details ›
Chains: A, B
Length: 414 amino acids
Theoretical weight: 46.74 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O88844 (Residues: 1-414; Coverage: 100%)
Gene name: Idh1
Sequence domains: Isocitrate/isopropylmalate dehydrogenase
Structure domains: Isopropylmalate Dehydrogenase

Ligands and Environments


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

Experiments and Validation Details

Entry percentile scores
X-ray source: PAL/PLS BEAMLINE 6B
Spacegroup: C2
Unit cell:
a: 97.372Å b: 91.289Å c: 109.381Å
α: 90° β: 113.34° γ: 90°
R-values:
R R work R free
0.184 0.182 0.221
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

IDH2: A novel biomarker for environmental exposure in blood circulatory system disorders.
Gong et al. (2022)
3 other articles

2 mentions without citation

Insight into novel RNA-binding activities via large-scale analysis of lncRNA-bound proteome and IDH1-bound transcriptome.
Liu et al. (2019)
1 more