› 4m2k

X-ray diffraction
2Å resolution

Crystal structure of PLP-dependent cyclase OrfR in complex with PLP

Released:
DOI: 10.2210/pdb4m2k/pdb
PDB entry 4m2k coloured by chain, front view.
PDB entry 4m2k coloured by chain, side view.
PDB entry 4m2k coloured by chain, top view.
Source organism: Streptomyces lavendulae subsp. lavendulae
Primary publication:
Biosynthesis of streptolidine involved two unexpected intermediates produced by a dihydroxylase and a cyclase through unusual mechanisms.
Chang CY, Lyu SY, Liu YC, Hsu NS, Wu CC, Tang CF, Lin KH, Ho JY, Wu CJ, Tsai MD, Li TL
Angew Chem Int Ed Engl 53 1943-8 (2014)
PMID: 24505011

Function and Biology Details

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-515662 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Aminotransferase class I/classII large domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 406 amino acids
Theoretical weight: 43.72 KDa
Source organism: Streptomyces lavendulae subsp. lavendulae
Expression system: Escherichia coli
UniProt:
  • Canonical: G9MBV4 (Residues: 1-386; Coverage: 100%)
Gene names: SLAV_37385, vioD
Sequence domains: Aminotransferase class I and II
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand PLP 1 x PLP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL13B1
Spacegroup: P43212
Unit cell:
a: 132.802Å b: 132.802Å c: 58.879Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.172 0.17 0.196
Expression system: Escherichia coli

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Citations

6 review citations

Dioxygen activation by nonheme iron enzymes with the 2-His-1-carboxylate facial triad that generate high-valent oxoiron oxidants.
Kal et al. (2017)
5 more