› 1lwd

X-ray diffraction
1.85Å resolution

CRYSTAL STRUCTURE OF NADP-DEPENDENT ISOCITRATE DEHYDROGENASE FROM PORCINE HEART MITOCHONDRIA

Released:
DOI: 10.2210/pdb1lwd/pdb
PDB entry 1lwd coloured by chain, front view.
PDB entry 1lwd coloured by chain, side view.
PDB entry 1lwd coloured by chain, top view.
Source organism: Sus scrofa
Primary publication:
Crystal structure of porcine mitochondrial NADP+-dependent isocitrate dehydrogenase complexed with Mn2+ and isocitrate. Insights into the enzyme mechanism.
Ceccarelli C, Grodsky NB, Ariyaratne N, Colman RF, Bahnson BJ
J Biol Chem 277 43454-62 (2002)
PMID: 12207025

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-152558 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Isocitrate dehydrogenase [NADP], mitochondrial Chains: A, B
Molecule details ›
Chains: A, B
Length: 413 amino acids
Theoretical weight: 46.7 KDa
Source organism: Sus scrofa
Expression system: Escherichia coli
UniProt:
  • Canonical: P33198 (Residues: 9-421; Coverage: 98%)
Gene name: IDH2
Sequence domains: Isocitrate/isopropylmalate dehydrogenase
Structure domains: Isopropylmalate Dehydrogenase

Ligands and Environments

3 bound ligands:
Ligand MN 2 x MN
Ligand ICT 2 x ICT
Ligand SO4 2 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RUH3R
Spacegroup: C2
Unit cell:
a: 137.86Å b: 112.569Å c: 66.08Å
α: 90° β: 97° γ: 90°
R-values:
R R work R free
0.198 0.182 0.21
Expression system: Escherichia coli

Quick links

Citations

8 review citations

Isocitrate dehydrogenase 1 and 2 mutations in cancer: alterations at a crossroads of cellular metabolism.
Reitman et al. (2010)
7 more

12 mentions without citation

Impact of the Protein Data Bank on antineoplastic approvals.
Westbrook et al. (2020)
11 more