› 4lna

X-ray diffraction
2.1Å resolution

CRYSTAL STRUCTURE OF purine nucleoside phosphorylase I from Spirosoma linguale DSM 74, NYSGRC Target 029362

Released:
DOI: 10.2210/pdb4lna/pdb
PDB entry 4lna coloured by chain, front view.
PDB entry 4lna coloured by chain, side view.
PDB entry 4lna coloured by chain, top view.
Source organism: Spirosoma linguale DSM 74
Entry authors: Malashkevich VN, Bonanno JB, Bhosle R, Toro R, Hillerich B, Gizzi A, Garforth S, Kar A, Chan MK, Lafluer J, Patel H, Matikainen B, Chamala S, Lim S, Celikgil A, Villegas G, Evans B, Love J, Fiser A, Khafizov K, Seidel R, Almo SC, New York Structural Genomics Research Consortium (NYSGRC)

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-112400 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Purine nucleoside phosphorylase Chain: A
Molecule details ›
Chain: A
Length: 293 amino acids
Theoretical weight: 33.05 KDa
Source organism: Spirosoma linguale DSM 74
Expression system: Escherichia coli
UniProt:
  • Canonical: D2QIK7 (Residues: 1-271; Coverage: 100%)
Gene name: Slin_3943
Sequence domains: Phosphorylase superfamily
Structure domains: Nucleoside phosphorylase domain

Ligands and Environments

4 bound ligands:
Ligand PO4 2 x PO4
Ligand ADE 1 x ADE
Ligand MPD 1 x MPD
Ligand CL 1 x CL
1 modified residue:
Ligand MSE 13 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS BEAMLINE X29A
Spacegroup: P4332
Unit cell:
a: 125.561Å b: 125.561Å c: 125.561Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.174 0.172 0.216
Expression system: Escherichia coli

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