› 5lc9

X-ray diffraction
1.9Å resolution

Structure of Polyphosphate Kinase from Meiothermus ruber Apo-form

Released:
DOI: 10.2210/pdb5lc9/pdb
PDB entry 5lc9 coloured by chain, front view.
PDB entry 5lc9 coloured by chain, side view.
PDB entry 5lc9 coloured by chain, top view.
Source organism: Meiothermus ruber H328
Primary publication:
Substrate recognition and mechanism revealed by ligand-bound polyphosphate kinase 2 structures.
Parnell AE, Mordhorst S, Kemper F, Giurrandino M, Prince JP, Schwarzer NJ, Hofer A, Wohlwend D, Jessen HJ, Gerhardt S, Einsle O, Oyston PCF, Andexer JN, Roach PL
Proc Natl Acad Sci U S A 115 3350-3355 (2018)
PMID: 29531036

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-165939 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Polyphosphate:AMP phosphotransferase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 287 amino acids
Theoretical weight: 33.78 KDa
Source organism: Meiothermus ruber H328
Expression system: Escherichia coli BL21(DE3)
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

2 bound ligands:
Ligand PO4 4 x PO4
Ligand SO4 4 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X06SA
Spacegroup: P43212
Unit cell:
a: 164.783Å b: 164.783Å c: 94.983Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.173 0.172 0.192
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

1 review citation

Beyond Triphosphates: Reagents and Methods for Chemical Oligophosphorylation.
Shepard et al. (2022)
12 other articles

2 mentions without citation

Polyphosphate Kinase 2 (PPK2) Enzymes: Structure, Function, and Roles in Bacterial Physiology and Virulence.
Neville et al. (2022)
1 more