› 2czd

X-ray diffraction
1.6Å resolution

Crystal structure of orotidine 5'-phosphate decarboxylase from Pyrococcus horikoshii OT3 at 1.6 A resolution

Released:
DOI: 10.2210/pdb2czd/pdb
PDB entry 2czd coloured by chain, front view.
PDB entry 2czd coloured by chain, side view.
PDB entry 2czd coloured by chain, top view.
Source organism: Pyrococcus horikoshii OT3
Entry authors: Arai R, Ito K, Kamo-Uchikubo T, 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

2 bound ligands:
Ligand DTT 1 x DTT
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B1
Spacegroup: P21
Unit cell:
a: 43.707Å b: 70.923Å c: 63.48Å
α: 90° β: 102.48° γ: 90°
R-values:
R R work R free
0.172 0.172 0.197
Expression system: Escherichia coli

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