› 2g09

X-ray diffraction
2.1Å resolution

X-ray structure of mouse pyrimidine 5'-nucleotidase type 1, product complex

Released:
DOI: 10.2210/pdb2g09/pdb
PDB entry 2g09 coloured by chain, front view.
PDB entry 2g09 coloured by chain, side view.
PDB entry 2g09 coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Structure of pyrimidine 5'-nucleotidase type 1. Insight into mechanism of action and inhibition during lead poisoning.
Bitto E, Bingman CA, Wesenberg GE, McCoy JG, Phillips GN
J Biol Chem 281 20521-9 (2006)
PMID: 16672222

Function and Biology Details

Reactions catalysed: 
A 5'-ribonucleotide + H(2)O = a ribonucleoside + phosphate
CMP + H(2)O = cytidine + phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-190032 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Cytosolic 5'-nucleotidase 3A Chains: A, B
Molecule details ›
Chains: A, B
Length: 297 amino acids
Theoretical weight: 34.16 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9D020 (Residues: 37-43, 44-331; Coverage: 89%)
  • Best match: Q9D020-1 (Residues: 2-297)
Gene names: Nt5c3, Nt5c3a
Sequence domains: Pyrimidine 5'-nucleotidase (UMPH-1)
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand MG 2 x MG
Ligand PO4 2 x PO4
Ligand PIN 2 x PIN
1 modified residue:
Ligand MSE 16 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 8-BM
Spacegroup: P32
Unit cell:
a: 134.006Å b: 134.006Å c: 39.087Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.153 0.15 0.198
Expression system: Escherichia coli

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Citations

1 review citation

Structures of proteins of biomedical interest from the Center for Eukaryotic Structural Genomics.
Phillips et al. (2007)
13 other articles