› 3wmr

X-ray diffraction
1.95Å resolution

Crystal structure of VinJ

Released:
DOI: 10.2210/pdb3wmr/pdb
PDB entry 3wmr coloured by chain, front view.
PDB entry 3wmr coloured by chain, side view.
PDB entry 3wmr coloured by chain, top view.
Source organism: Streptomyces halstedii
Primary publication:
The crystal structure of the amidohydrolase VinJ shows a unique hydrophobic tunnel for its interaction with polyketide substrates.
Shinohara Y, Miyanaga A, Kudo F, Eguchi T
FEBS Lett 588 995-1000 (2014)
PMID: 24530530

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-181174 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
AB hydrolase-1 domain-containing protein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 315 amino acids
Theoretical weight: 35.7 KDa
Source organism: Streptomyces halstedii
Expression system: Escherichia coli
UniProt:
  • Canonical: Q76KY6 (Residues: 1-299; Coverage: 100%)
Gene name: vinJ
Sequence domains: alpha/beta hydrolase fold
Structure domains: alpha/beta hydrolase

Ligands and Environments

2 bound ligands:
Ligand GOL 3 x GOL
Ligand P4G 2 x P4G
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: P1
Unit cell:
a: 52.87Å b: 72.62Å c: 75.45Å
α: 114.02° β: 98.39° γ: 98.5°
R-values:
R R work R free
0.167 0.165 0.206
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Mechanisms of β-amino acid incorporation in polyketide macrolactam biosynthesis.
Miyanaga et al. (2016)
1 more

2 mentions without citation

Semi-rational evolution of the 3-(3-hydroxyalkanoyloxy)alkanoate (HAA) synthase RhlA to improve rhamnolipid production in Pseudomonas aeruginosa and Burkholderia glumae.
Dulcey et al. (2019)
1 more