› 5xde

X-ray diffraction
1.6Å resolution

Crystal structure of tertiary complex of TdsC from Paenibacillus sp. A11-2 with FMN and dibenzothiophene

Released:
DOI: 10.2210/pdb5xde/pdb
PDB entry 5xde coloured by chain, front view.
PDB entry 5xde coloured by chain, side view.
PDB entry 5xde coloured by chain, top view.
Source organism: Paenibacillus sp. A11-2
Primary publication:
Crystal structures of TdsC, a dibenzothiophene monooxygenase from the thermophile Paenibacillus sp. A11-2, reveal potential for expanding its substrate selectivity.
Hino T, Hamamoto H, Suzuki H, Yagi H, Ohshiro T, Nagano S
J Biol Chem 292 15804-15813 (2017)
PMID: 28768765

Function and Biology Details

Reaction catalysed: 
(1a) dibenzothiophene + FMNH(2) + O(2) = dibenzothiophene-5-oxide + FMN + H(2)O
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-192250 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Dibenzothiophene monooxygenase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 414 amino acids
Theoretical weight: 45.81 KDa
Source organism: Paenibacillus sp. A11-2
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9LBX2 (Residues: 1-414; Coverage: 100%)
Gene name: tdsC
Sequence domains:
Structure domains:

Ligands and Environments


Cofactor: Ligand FMN 4 x FMN
3 bound ligands:
Ligand SO4 5 x SO4
Ligand GOL 3 x GOL
Ligand 83R 3 x 83R
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL26B1
Spacegroup: P41212
Unit cell:
a: 101.22Å b: 101.22Å c: 424.74Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.196 0.194 0.218
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Monooxygenation of aromatic compounds by flavin-dependent monooxygenases.
Chenprakhon et al. (2019)
1 more

1 mention without citation

Crystal structures of TdsC, a dibenzothiophene monooxygenase from the thermophile Paenibacillus sp. A11-2, reveal potential for expanding its substrate selectivity.
Hino et al. (2017)