› 2yzk

X-ray diffraction
1.8Å resolution

Crystal structure of orotate phosphoribosyltransferase from Aeropyrum pernix

Released:
DOI: 10.2210/pdb2yzk/pdb
PDB entry 2yzk coloured by chain, front view.
PDB entry 2yzk coloured by chain, side view.
PDB entry 2yzk coloured by chain, top view.
Source organism: Aeropyrum pernix
Entry authors: Kanagawa M, Baba S, Kuramitsu S, Yokoyama S, Kawai G, Sampei G, RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Function and Biology Details

Reaction catalysed: 
Orotidine 5'-phosphate + diphosphate = orotate + 5-phospho-alpha-D-ribose 1-diphosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-195426 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Orotate phosphoribosyltransferase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 178 amino acids
Theoretical weight: 18.96 KDa
Source organism: Aeropyrum pernix
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9Y9D8 (Residues: 9-186; Coverage: 96%)
Gene names: APE_2349.1, pyrE
Sequence domains: Phosphoribosyl transferase domain
Structure domains: Rossmann fold

Ligands and Environments

1 bound ligand:
Ligand PO4 2 x PO4
1 modified residue:
Ligand MSE 16 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B2
Spacegroup: P212121
Unit cell:
a: 60.628Å b: 80.552Å c: 118.432Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.23 0.23 0.238
Expression system: Escherichia coli

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