› 3d2r

X-ray diffraction
2.03Å resolution

Crystal structure of pyruvate dehydrogenase kinase isoform 4 in complex with ADP

Released:
DOI: 10.2210/pdb3d2r/pdb
PDB entry 3d2r coloured by chain, front view.
PDB entry 3d2r coloured by chain, side view.
PDB entry 3d2r coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Pyruvate dehydrogenase kinase-4 structures reveal a metastable open conformation fostering robust core-free basal activity.
Wynn RM, Kato M, Chuang JL, Tso SC, Li J, Chuang DT
J Biol Chem 283 25305-25315 (2008)
PMID: 18658136

Function and Biology Details

Reaction catalysed: 
ATP + [pyruvate dehydrogenase (acetyl-transferring)] = ADP + [pyruvate dehydrogenase (acetyl-transferring)] phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-172541 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 4, mitochondrial Chains: A, B
Molecule details ›
Chains: A, B
Length: 394 amino acids
Theoretical weight: 44.77 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q16654 (Residues: 20-411; Coverage: 95%)
Gene names: PDHK4, PDK4
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand MG 2 x MG
Ligand ADP 2 x ADP
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU FR-E+ SUPERBRIGHT
Spacegroup: P21
Unit cell:
a: 70.595Å b: 69.374Å c: 82.328Å
α: 90° β: 99.26° γ: 90°
R-values:
R R work R free
0.185 0.183 0.23
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

8 review citations

Regulation of pyruvate metabolism and human disease.
Gray et al. (2014)
7 more

2 mentions without citation

Pyruvate dehydrogenase kinase-4 structures reveal a metastable open conformation fostering robust core-free basal activity.
Wynn et al. (2008)
1 more