› 2bu7

X-ray diffraction
2.4Å resolution

crystal structures of human pyruvate dehydrogenase kinase 2 containing physiological and synthetic ligands

Released:
DOI: 10.2210/pdb2bu7/pdb
PDB entry 2bu7 coloured by chain, front view.
PDB entry 2bu7 coloured by chain, side view.
PDB entry 2bu7 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Regulatory roles of the N-terminal domain based on crystal structures of human pyruvate dehydrogenase kinase 2 containing physiological and synthetic ligands.
Knoechel TR, Tucker AD, Robinson CM, Phillips C, Taylor W, Bungay PJ, Kasten SA, Roche TE, Brown DG
Biochemistry 45 402-15 (2006)
PMID: 16401071

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-556654 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
[Pyruvate dehydrogenase (acetyl-transferring)] kinase isozyme 2, mitochondrial Chain: A
Molecule details ›
Chain: A
Length: 394 amino acids
Theoretical weight: 44.65 KDa
Source organism: Homo sapiens
Expression system: Trichoplusia ni
UniProt:
  • Canonical: Q15119 (Residues: 14-407; Coverage: 97%)
  • Best match: Q15119-2 (Residues: 1-343)
Gene names: PDHK2, PDK2
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand TF3 1 x TF3
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU RU200
Spacegroup: P64
Unit cell:
a: 108.876Å b: 108.876Å c: 84.025Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.211 0.211 0.241
Expression system: Trichoplusia ni

Quick links

Citations

15 review citations

The Warburg effect in tumor progression: mitochondrial oxidative metabolism as an anti-metastasis mechanism.
Lu et al. (2015)
14 more

6 mentions without citation

Phenylbutyrate therapy for pyruvate dehydrogenase complex deficiency and lactic acidosis.
Ferriero et al. (2013)
5 more