› 1yqu

X-ray diffraction
3.1Å resolution

Escherichia coli purine nucleoside phosphorylase II, the product of the xapA gene

Released:
DOI: 10.2210/pdb1yqu/pdb
PDB entry 1yqu coloured by chain, front view.
PDB entry 1yqu coloured by chain, side view.
PDB entry 1yqu coloured by chain, top view.
Source organism: Escherichia coli
Primary publication:
Escherichia coli purine nucleoside phosphorylase II, the product of the xapA gene.
Dandanell G, Szczepanowski RH, Kierdaszuk B, Shugar D, Bochtler M
J Mol Biol 348 113-25 (2005)
PMID: 15808857

Function and Biology Details

Reaction catalysed: 
Purine deoxynucleoside + phosphate = purine + 2'-deoxy-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-155315 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Purine nucleoside phosphorylase 2 Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 277 amino acids
Theoretical weight: 29.87 KDa
Source organism: Escherichia coli
Expression system: Escherichia coli
UniProt:
  • Canonical: P45563 (Residues: 1-277; Coverage: 100%)
Gene names: JW2398, b2407, pndA, xapA
Sequence domains: Phosphorylase superfamily
Structure domains: Nucleoside phosphorylase domain

Ligands and Environments

2 bound ligands:
Ligand PO4 3 x PO4
Ligand GUN 3 x GUN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: EMBL/DESY, HAMBURG BEAMLINE X11
Spacegroup: P3221
Unit cell:
a: 71.345Å b: 71.345Å c: 267.537Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.246 0.245 0.267
Expression system: Escherichia coli

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Citations

1 review citation

8-Azapurines as isosteric purine fluorescent probes for nucleic acid and enzymatic research.
Wierzchowski et al. (2014)
9 other articles