› 5mx4

X-ray diffraction
2.31Å resolution

Crystal structure of H. pylori purine nucleoside phosphorylase from clinical isolate HpPNP-1

Released:
DOI: 10.2210/pdb5mx4/pdb
PDB entry 5mx4 coloured by chain, front view.
PDB entry 5mx4 coloured by chain, side view.
PDB entry 5mx4 coloured by chain, top view.
Source organism: Helicobacter pylori R018c
Primary publication:
Structural characterization of purine nucleoside phosphorylase from human pathogen Helicobacter pylori.
Štefanić Z, Mikleušević G, Luić M, Bzowska A, Leščić Ašler I
Int J Biol Macromol 101 518-526 (2017)
PMID: 28336275

Function and Biology Details

Reaction catalysed: 
Uridine + phosphate = uracil + alpha-D-ribose 1-phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-125506 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Uridine phosphorylase Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 233 amino acids
Theoretical weight: 25.82 KDa
Source organism: Helicobacter pylori R018c
UniProt:
  • Canonical: K2JXG0 (Residues: 1-233; Coverage: 100%)
Gene names: OUC_1441, deoD
Sequence domains: Phosphorylase superfamily
Structure domains: Nucleoside phosphorylase domain

Ligands and Environments

2 bound ligands:
Ligand HPA 1 x HPA
Ligand PO4 1 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ELETTRA BEAMLINE 5.2R
Spacegroup: P212121
Unit cell:
a: 74.19Å b: 129.492Å c: 156.019Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.183 0.18 0.24

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Citations

1 review citation

Helicobacter pylori treatment in the post-antibiotics era-searching for new drug targets.
Roszczenko-Jasińska et al. (2020)
5 other articles