› 2zgv

X-ray diffraction
2Å resolution

Crystal Structure of human phosphoglycerate kinase bound to D-ADP

Released:
DOI: 10.2210/pdb2zgv/pdb
PDB entry 2zgv coloured by chain, front view.
PDB entry 2zgv coloured by chain, side view.
PDB entry 2zgv coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Molecular basis for the lack of enantioselectivity of human 3-phosphoglycerate kinase.
Gondeau C, Chaloin L, Lallemand P, Roy B, Périgaud C, Barman T, Varga A, Vas M, Lionne C, Arold ST
Nucleic Acids Res 36 3620-9 (2008)
PMID: 18463139

Function and Biology Details

Reaction catalysed: 
ATP + 3-phospho-D-glycerate = ADP + 3-phospho-D-glyceroyl phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-132717 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Phosphoglycerate kinase 1 Chain: A
Molecule details ›
Chain: A
Length: 420 amino acids
Theoretical weight: 44.95 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P00558 (Residues: 1-417; Coverage: 100%)
Gene names: MIG10, OK/SW-cl.110, PGK1, PGKA
Sequence domains: Phosphoglycerate kinase
Structure domains: Phosphoglycerate kinase, N-terminal domain

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-4
Spacegroup: P21
Unit cell:
a: 35.956Å b: 106.627Å c: 50.35Å
α: 90° β: 97.3° γ: 90°
R-values:
R R work R free
0.178 0.176 0.258
Expression system: Escherichia coli

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Citations

1 review citation

Conformational dynamics in phosphoglycerate kinase, an open and shut case?
Bowler MW. (2013)
18 other articles

5 mentions without citation

A spring-loaded release mechanism regulates domain movement and catalysis in phosphoglycerate kinase.
Zerrad et al. (2011)
4 more