› 2vrk

X-ray diffraction
2.2Å resolution

Structure of a seleno-methionyl derivative of wild type arabinofuranosidase from Thermobacillus xylanilyticus

Released:
DOI: 10.2210/pdb2vrk/pdb
PDB entry 2vrk coloured by chain, front view.
PDB entry 2vrk coloured by chain, side view.
PDB entry 2vrk coloured by chain, top view.
Source organism: Thermobacillus xylanilyticus
Primary publication:
The structure of the complex between a branched pentasaccharide and Thermobacillus xylanilyticus GH-51 arabinofuranosidase reveals xylan-binding determinants and induced fit.
Paës G, Skov LK, O'Donohue MJ, Rémond C, Kastrup JS, Gajhede M, Mirza O
Biochemistry 47 7441-51 (2008)
PMID: 18563919

Function and Biology Details

Reaction catalysed: 
Hydrolysis of terminal non-reducing alpha-L-arabinofuranoside residues in alpha-L-arabinosides
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-130649 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alpha-L-arabinofuranosidase C-terminal domain-containing protein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 496 amino acids
Theoretical weight: 56.93 KDa
Source organism: Thermobacillus xylanilyticus
Expression system: Escherichia coli
UniProt:
  • Canonical: O69262 (Residues: 1-496; Coverage: 100%)
Gene name: AbjA
Sequence domains: Alpha-L-arabinofuranosidase C-terminal domain
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand PO4 4 x PO4
1 modified residue:
Ligand MSE 48 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-2
Spacegroup: P6522
Unit cell:
a: 158Å b: 158Å c: 380Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.166 0.165 0.186
Expression system: Escherichia coli

Quick links

Citations

5 review citations

Biotransformation of ginsenosides by hydrolyzing the sugar moieties of ginsenosides using microbial glycosidases.
Park et al. (2010)
4 more

4 mentions without citation

Structure of a novel thermostable GH51 α-L-arabinofuranosidase from Thermotoga petrophila RKU-1.
Souza et al. (2011)
3 more