› 3crk

X-ray diffraction
2.3Å resolution

Crystal structure of the PDHK2-L2 complex.

Released:
DOI: 10.2210/pdb3crk/pdb
PDB entry 3crk coloured by chain, front view.
PDB entry 3crk coloured by chain, side view.
PDB entry 3crk coloured by chain, top view.
Source organisms:
Primary publication:
Structural and functional insights into the molecular mechanisms responsible for the regulation of pyruvate dehydrogenase kinase 2.
Green T, Grigorian A, Klyuyeva A, Tuganova A, Luo M, Popov KM
J Biol Chem 283 15789-98 (2008)
PMID: 18387944

Function and Biology Details

Reactions catalysed: 
ATP + [pyruvate dehydrogenase (acetyl-transferring)] = ADP + [pyruvate dehydrogenase (acetyl-transferring)] phosphate
Acetyl-CoA + enzyme N(6)-(dihydrolipoyl)lysine = CoA + enzyme N(6)-(S-acetyldihydrolipoyl)lysine
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-145329 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial Chains: A, B
Molecule details ›
Chains: A, B
Length: 407 amino acids
Theoretical weight: 46.16 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q64536 (Residues: 1-407; Coverage: 100%)
Gene name: Pdk2
Sequence domains:
Structure domains:
Dihydrolipoyllysine-residue acetyltransferase component of pyruvate dehydrogenase complex, mitochondrial Chains: C, D
Molecule details ›
Chains: C, D
Length: 87 amino acids
Theoretical weight: 9.76 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P10515 (Residues: 214-300; Coverage: 13%)
Gene names: DLAT, DLTA
Sequence domains: Biotin-requiring enzyme
Structure domains: OB fold (Dihydrolipoamide Acetyltransferase, E2P)

Ligands and Environments

1 bound ligand:
Ligand K 2 x K
1 modified residue:
Ligand LA2 2 x LA2

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-BM
Spacegroup: P21
Unit cell:
a: 71.38Å b: 120.679Å c: 71.466Å
α: 90° β: 96.03° γ: 90°
R-values:
R R work R free
0.21 0.208 0.251
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

4 review citations

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

2 mentions without citation

Architecture and roles of periplasmic adaptor proteins in tripartite efflux assemblies.
Symmons et al. (2015)
1 more