3VIG: Crystal Structure Of Beta-glucosidase From Termite Neotermes Koshunensis In Complex With 1-deoxynojirimycin

NkBgl, a beta-glucosidase from Neotermes koshunensis, is a beta-retaining glycosyl hydrolase family 1 enzyme that cleaves beta-glucosidic linkages in disaccharide or glucose-substituted molecules. beta-Glucosidases have been widely used in several applications. For example, mutagenesis of the attacking nucleophile in beta-glucosidase has been conducted to convert it into a glycosynthase for the synthesis of oligosaccharides. Here, several high-resolution structures of wild-type or mutated NkBgl in complex with different ligand molecules are reported. In the wild-type NkBgl structures it was found that glucose-like glucosidase inhibitors bind to the glycone-binding pocket, allowing the buffer molecule HEPES to remain in the aglycone-binding pocket. In the crystal structures of NkBgl E193A, E193S and E193D mutants Glu193 not only acts as the catalytic acid/base but also plays an important role in controlling substrate entry and product release. Furthermore, in crystal structures of the NkBgl E193D mutant it was found that new glucoconjugates were generated by the conjugation of glucose (hydrolyzed product) and HEPES/EPPS/opipramol (buffer components). Based on the wild-type and E193D-mutant structures of NkBgl, the glucosidic bond of cellobiose or salicin was hydrolyzed and a new bond was subsequently formed between glucose and HEPES/EPPS/opipramol to generate new glucopyranosidic products through the transglycosylation reaction in the NkBgl E193D mutant. This finding highlights an innovative way to further improve beta-glucosidases for the enzymatic synthesis of oligosaccharides.
PDB ID: 3VIGDownload
MMDB ID: 101000
PDB Deposition Date: 2011/10/3
Updated in MMDB: 2012/07
Experimental Method:
x-ray diffraction
Resolution: 0.99  Å
Source Organism:
Similar Structures:
Biological Unit for 3VIG: monomeric; determined by author
Molecular Components in 3VIG
Label Count Molecule
Protein (1 molecule)
Molecule annotation
Chemicals (5 molecules)
* Click molecule labels to explore molecular sequence information.

Citing MMDB