› 6yjf

X-ray diffraction
1.85Å resolution

Plasmoodium vivax phosphoglycerate kinase bound to nitrofuran inhibitor from PEGSmear at pH 6.5

Released:
DOI: 10.2210/pdb6yjf/pdb
PDB entry 6yjf coloured by chain, front view.
PDB entry 6yjf coloured by chain, side view.
PDB entry 6yjf coloured by chain, top view.
Source organism: Plasmodium vivax
Entry authors: Hyvonen M, Brear P, Blaszczyk BK

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-107672 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Phosphoglycerate kinase Chain: A
Molecule details ›
Chain: A
Length: 416 amino acids
Theoretical weight: 45.2 KDa
Source organism: Plasmodium vivax
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: A5K6T9 (Residues: 2-416; Coverage: 100%)
Gene name: PVX_099535
Sequence domains: Phosphoglycerate kinase

Ligands and Environments

2 bound ligands:
Ligand GOL 1 x GOL
Ligand OTQ 1 x OTQ
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P212121
Unit cell:
a: 42.594Å b: 82.315Å c: 124.495Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.193 0.191 0.225
Expression system: Escherichia coli BL21(DE3)

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