› 2xvk

X-ray diffraction
2.5Å resolution

crystal structure of alpha-xylosidase (GH31) from Cellvibrio japonicus in complex with 5-fluoro-alpha-D-xylopyranosyl fluoride

Released:
DOI: 10.2210/pdb2xvk/pdb
PDB entry 2xvk coloured by chain, front view.
PDB entry 2xvk coloured by chain, side view.
PDB entry 2xvk coloured by chain, top view.
Source organism: Cellvibrio japonicus
Primary publication:
Structural and enzymatic characterization of a glycoside hydrolase family 31 α-xylosidase from Cellvibrio japonicus involved in xyloglucan saccharification.
Larsbrink J, Izumi A, Ibatullin FM, Nakhai A, Gilbert HJ, Davies GJ, Brumer H
Biochem J 436 567-80 (2011)
PMID: 21426303

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-109882 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
PA14 domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 1020 amino acids
Theoretical weight: 115.2 KDa
Source organism: Cellvibrio japonicus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: B3PBD9 (Residues: 1-988; Coverage: 100%)
Gene names: CJA_2706, xyl31A
Sequence domains:
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand CL 4 x CL
Ligand NI 1 x NI
Ligand FFX 1 x FFX
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P6322
Unit cell:
a: 156.524Å b: 156.524Å c: 227.762Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.197 0.195 0.24
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

10 review citations

Polysaccharide Utilization Loci: Fueling Microbial Communities.
Grondin et al. (2017)
9 more

3 mentions without citation

The carbohydrate-active enzymes database (CAZy) in 2013.
Lombard et al. (2014)
2 more