› 3phb

X-ray diffraction
2.3Å resolution

Crystal Structure of human purine nucleoside phosphorylase in complex with DADMe-ImmG

Released:
DOI: 10.2210/pdb3phb/pdb
PDB entry 3phb coloured by chain, front view.
PDB entry 3phb coloured by chain, side view.
PDB entry 3phb coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Ho M, Cassera MB, Murkin AS, Almo SC, Schramm VL

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 Chains: E, Q, S, T, U, Y
Molecule details ›
Chains: E, Q, S, T, U, Y
Length: 324 amino acids
Theoretical weight: 36.15 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 IM5 6 x IM5
Ligand PO4 12 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: C2
Unit cell:
a: 269.27Å b: 52.632Å c: 128.119Å
α: 90° β: 90.33° γ: 90°
R-values:
R R work R free
0.233 0.23 0.295
Expression system: Escherichia coli BL21(DE3)

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