› 3vim

X-ray diffraction
1.03Å resolution

Crystal structure of beta-glucosidase from termite Neotermes koshunensis in complex with a new glucopyranosidic product

Released:
DOI: 10.2210/pdb3vim/pdb
PDB entry 3vim coloured by chain, front view.
PDB entry 3vim coloured by chain, side view.
PDB entry 3vim coloured by chain, top view.
Source organism: Neotermes koshunensis
Primary publication:
High-resolution structures of Neotermes koshunensis β-glucosidase mutants provide insights into the catalytic mechanism and the synthesis of glucoconjugates.
Jeng WY, Wang NC, Lin CT, Chang WJ, Liu CI, Wang AH
Acta Crystallogr D Biol Crystallogr 68 829-38 (2012)
PMID: 22751668

Function and Biology Details

Reaction catalysed: 
Hydrolysis of terminal, non-reducing beta-D-glucosyl residues with release of beta-D-glucose
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-570100 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Beta-glucosidase Chain: A
Molecule details ›
Chain: A
Length: 487 amino acids
Theoretical weight: 55.61 KDa
Source organism: Neotermes koshunensis
Expression system: Escherichia coli
UniProt:
  • Canonical: Q8T0W7 (Residues: 21-498; Coverage: 100%)
Gene name: NkBG
Sequence domains: Glycosyl hydrolase family 1
Structure domains: Glycosidases

Ligands and Environments

4 bound ligands:
Ligand GBH 1 x GBH
Ligand GOL 1 x GOL
Ligand NA 1 x NA
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: NSRRC BEAMLINE BL13B1
Spacegroup: C2
Unit cell:
a: 93.124Å b: 68.557Å c: 75.455Å
α: 90° β: 95.72° γ: 90°
R-values:
R R work R free
0.128 0.128 0.143
Expression system: Escherichia coli

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Citations

14 citation in other articles

En Route to the Transformation of Glycoscience: A Chemist's Perspective on Internal and External Crossroads in Glycochemistry.
Crich D. (2021)
13 more