› 7eyk

X-ray diffraction
1.38Å resolution

Crystal structure of Escherichia coli ppnP-Selenomethionine derived

Released:
DOI: 10.2210/pdb7eyk/pdb
PDB entry 7eyk coloured by chain, front view.
PDB entry 7eyk coloured by chain, side view.
PDB entry 7eyk coloured by chain, top view.
Source organism: Escherichia coli K-12
Primary publication:
Crystal structures of a new class of pyrimidine/purine nucleoside phosphorylase revealed a Cupin fold.
Wen Y, Li X, Guo W, Wu B
Proteins 90 1233-1241 (2022)
PMID: 35094440

Function and Biology Details

Reactions catalysed: 
Purine deoxynucleoside + phosphate = purine + 2'-deoxy-alpha-D-ribose 1-phosphate
2'-deoxyuridine + phosphate = uracil + 2-deoxy-alpha-D-ribose 1-phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-142854 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Pyrimidine/purine nucleoside phosphorylase Chain: A
Molecule details ›
Chain: A
Length: 95 amino acids
Theoretical weight: 10.47 KDa
Source organism: Escherichia coli K-12
Expression system: Escherichia coli
UniProt:
  • Canonical: P0C037 (Residues: 1-94; Coverage: 100%)
Gene names: JW0382, b0391, ppnP, yaiE
Sequence domains: Pyrimidine/purine nucleoside phosphorylase

Ligands and Environments

No bound ligands
1 modified residue:
Ligand MSE 3 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL18U1
Spacegroup: P62
Unit cell:
a: 59.658Å b: 59.658Å c: 52.652Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.152 0.151 0.169
Expression system: Escherichia coli

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