› 3k8q

X-ray diffraction
2.5Å resolution

Crystal structure of human purine nucleoside phosphorylase in complex with SerMe-Immucillin H

Released:
DOI: 10.2210/pdb3k8q/pdb
PDB entry 3k8q coloured by chain, front view.
PDB entry 3k8q coloured by chain, side view.
PDB entry 3k8q coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structure of human nucleoside phosphorylase in complex with SerMe-ImmH
Ho M, Almo SC, Scharmm VL
Proc. Natl. Acad. Sci. U.S.A. (2010)

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 trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-132560 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Purine nucleoside phosphorylase Chain: A
Molecule details ›
Chain: A
Length: 289 amino acids
Theoretical weight: 32.18 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P00491 (Residues: 1-289; Coverage: 100%)
Gene names: NP, PNP
Sequence domains: Phosphorylase superfamily
Structure domains: Nucleoside phosphorylase domain

Ligands and Environments

2 bound ligands:
Ligand 22A 1 x 22A
Ligand PO4 2 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: R32
Unit cell:
a: 142.968Å b: 142.968Å c: 168.548Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.224 0.222 0.262
Expression system: Escherichia coli BL21(DE3)

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