› 9em4

X-ray diffraction
2.01Å resolution

OPR3 variant Y364P in its dimeric form obtained with ammonium sulfate

Released:
DOI: 10.2210/pdb9em4/pdb
PDB entry 9em4 coloured by chain, front view.
PDB entry 9em4 coloured by chain, side view.
PDB entry 9em4 coloured by chain, top view.
Source organism: Solanum lycopersicum
Primary publication:
Analysis of homodimer formation in 12-oxophytodienoate reductase 3 in solutio and crystallo challenges the physiological role of the dimer.
Kerschbaumer B, Macheroux P, Bijelic A
Sci Rep 14 18093 (2024)
PMID: 39103552

Function and Biology Details

Reaction catalysed: 
8-((1R,2R)-3-oxo-2-((Z)-pent-2-enyl)cyclopentyl)octanoate + NADP(+) = (15Z)-12-oxophyto-10,15-dienoate + NADPH
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-190309 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
12-oxophytodienoate reductase 3 Chains: A, B
Molecule details ›
Chains: A, B
Length: 402 amino acids
Theoretical weight: 44.34 KDa
Source organism: Solanum lycopersicum
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9FEW9 (Residues: 1-396; Coverage: 100%)
Gene name: OPR3
Sequence domains: NADH:flavin oxidoreductase / NADH oxidase family

Ligands and Environments


Cofactor: Ligand FMN 2 x FMN
2 bound ligands:
Ligand SO4 1 x SO4
Ligand MES 1 x MES
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID30B
Spacegroup: P21
Unit cell:
a: 57.531Å b: 89.64Å c: 80.943Å
α: 90° β: 109.01° γ: 90°
R-values:
R R work R free
0.208 0.206 0.244
Expression system: Escherichia coli

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