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X-ray diffraction
2.7Å resolution

Crystal structure of Purine Nucleoside Phosphorylase from Trichomonas vaginalis with DADMe-Imm-A

Released:
DOI: 10.2210/pdb2isc/pdb
PDB entry 2isc coloured by chain, front view.
PDB entry 2isc coloured by chain, side view.
PDB entry 2isc coloured by chain, top view.
Source organism: Trichomonas vaginalis
Primary publication:
Inhibition and structure of Trichomonas vaginalis purine nucleoside phosphorylase with picomolar transition state analogues.
Rinaldo-Matthis A, Wing C, Ghanem M, Deng H, Wu P, Gupta A, Tyler PC, Evans GB, Furneaux RH, Almo SC, Wang CC, Schramm VL
Biochemistry 46 659-68 (2007)
PMID: 17223688

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-106833 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Nucleoside phosphorylase domain-containing protein Chains: A, B, C, D, E, F
Molecule details ›
Chains: A, B, C, D, E, F
Length: 239 amino acids
Theoretical weight: 26.37 KDa
Source organism: Trichomonas vaginalis
Expression system: Escherichia coli
UniProt:
  • Canonical: A2E7Y6 (Residues: 2-236; Coverage: 100%)
Gene name: TVAG_127180
Sequence domains: Phosphorylase superfamily
Structure domains: Nucleoside phosphorylase domain

Ligands and Environments

2 bound ligands:
Ligand PO4 8 x PO4
Ligand 223 6 x 223
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P212121
Unit cell:
a: 82.402Å b: 113.821Å c: 195.149Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.202 0.199 0.252
Expression system: Escherichia coli

Quick links

Citations

3 review citations

1'-Homonucleosides and their structural analogues: A review.
Wróblewski et al. (2016)
2 more

2 mentions without citation

Inhibition and structure of Trichomonas vaginalis purine nucleoside phosphorylase with picomolar transition state analogues.
Rinaldo-Matthis et al. (2007)
1 more