› 1t09

X-ray diffraction
2.7Å resolution

Crystal structure of human cytosolic NADP(+)-dependent isocitrate dehydrogenase in complex NADP

Released:
DOI: 10.2210/pdb1t09/pdb
PDB entry 1t09 coloured by chain, front view.
PDB entry 1t09 coloured by chain, side view.
PDB entry 1t09 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structures of human cytosolic NADP-dependent isocitrate dehydrogenase reveal a novel self-regulatory mechanism of activity.
Xu X, Zhao J, Xu Z, Peng B, Huang Q, Arnold E, Ding J
J Biol Chem 279 33946-57 (2004)
PMID: 15173171

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-131150 (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: 46.72 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O75874 (Residues: 1-414; Coverage: 100%)
Gene names: IDH1, PICD
Sequence domains: Isocitrate/isopropylmalate dehydrogenase
Structure domains: Isopropylmalate Dehydrogenase

Ligands and Environments


Cofactor: Ligand NAP 2 x NAP
No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CHESS BEAMLINE F2
Spacegroup: P43212
Unit cell:
a: 82.71Å b: 82.71Å c: 308.03Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.21 0.21 0.27
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

73 review citations

What a difference a hydroxyl makes: mutant IDH, (R)-2-hydroxyglutarate, and cancer.
Losman et al. (2013)
72 more

23 mentions without citation

IDH mutation in glioma: molecular mechanisms and potential therapeutic targets.
Han et al. (2020)
22 more