› 8gqr

X-ray diffraction
2.1Å resolution

Crystal structure of VioD with FAD

Released:
DOI: 10.2210/pdb8gqr/pdb
PDB entry 8gqr coloured by chain, front view.
PDB entry 8gqr coloured by chain, side view.
PDB entry 8gqr coloured by chain, top view.
Source organism: Duganella sp. ZLP-XI
Primary publication:
Structural basis for substrate binding and catalytic mechanism of the key enzyme VioD in the violacein synthesis pathway.
Xu M, Xu D, Gao M, Zhuang X, Wang W, Sun B, Ran T
Proteins (2023)
PMID: 36869636

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-100060 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
VioD Chains: A, B
Molecule details ›
Chains: A, B
Length: 403 amino acids
Theoretical weight: 44.54 KDa
Source organism: Duganella sp. ZLP-XI
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A024AX32 (Residues: 1-372; Coverage: 100%)

Ligands and Environments

3 bound ligands:
Ligand SO4 6 x SO4
Ligand GOL 1 x GOL
Ligand FAD 2 x FAD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U1
Spacegroup: P212121
Unit cell:
a: 50.603Å b: 100.869Å c: 162.815Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.19 0.19 0.226
Expression system: Escherichia coli

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