› 2czf

X-ray diffraction
1.85Å resolution

Crystal structure of orotidine 5'-phosphate decarboxylase from Pyrococcus horikoshii OT3 complexed with XMP

Released:
DOI: 10.2210/pdb2czf/pdb
PDB entry 2czf coloured by chain, front view.
PDB entry 2czf coloured by chain, side view.
PDB entry 2czf coloured by chain, top view.
Source organism: Pyrococcus horikoshii OT3
Entry authors: Ito K, Arai R, Shirouzu M, Yokoyama S, RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Function and Biology Details

Reaction catalysed: 
Orotidine 5'-phosphate = UMP + CO(2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-129731 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Orotidine 5'-phosphate decarboxylase Chains: A, B
Molecule details ›
Chains: A, B
Length: 208 amino acids
Theoretical weight: 22.72 KDa
Source organism: Pyrococcus horikoshii OT3
Expression system: Escherichia coli
UniProt:
  • Canonical: O58462 (Residues: 1-208; Coverage: 100%)
Gene names: PH0731, pyrF
Sequence domains: Orotidine 5'-phosphate decarboxylase / HUMPS family
Structure domains: Aldolase class I

Ligands and Environments

1 bound ligand:
Ligand XMP 2 x XMP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B1
Spacegroup: P21
Unit cell:
a: 44.054Å b: 73.134Å c: 61.979Å
α: 90° β: 100.84° γ: 90°
R-values:
R R work R free
0.208 0.208 0.242
Expression system: Escherichia coli

Quick links