View source for 3vim


==Crystal structure of beta-glucosidase from termite Neotermes koshunensis in complex with a new glucopyranosidic product==
<StructureSection load='3vim' size='340' side='right'caption='[[3vim]], [[Resolution|resolution]] 1.03&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[3vim]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Neotermes_koshunensis Neotermes koshunensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3VIM OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3VIM FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GBH:2-{4-[2-(BETA-D-GLUCOPYRANOSYLOXY)ETHYL]PIPERAZIN-1-YL}ETHANESULFONIC+ACID'>GBH</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3ahz|3ahz]], [[3ai0|3ai0]], [[3vif|3vif]], [[3vig|3vig]], [[3vih|3vih]], [[3vii|3vii]], [[3vij|3vij]], [[3vik|3vik]], [[3vil|3vil]], [[3vin|3vin]], [[3vio|3vio]], [[3vip|3vip]]</div></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">NkBG ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=60586 Neotermes koshunensis])</td></tr>
<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Beta-glucosidase Beta-glucosidase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.21 3.2.1.21] </span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3vim FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3vim OCA], [https://pdbe.org/3vim PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3vim RCSB], [https://www.ebi.ac.uk/pdbsum/3vim PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3vim ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
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.

High-resolution structures of Neotermes koshunensis beta-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. 2012 Jul;68(Pt 7):829-38. doi:, 10.1107/S0907444912013224. Epub 2012 Jun 19. PMID:22751668<ref>PMID:22751668</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3vim" style="background-color:#fffaf0;"></div>

==See Also==
*[[Beta-glucosidase 3D structures|Beta-glucosidase 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Beta-glucosidase]]
[[Category: Large Structures]]
[[Category: Neotermes koshunensis]]
[[Category: Jeng, W Y]]
[[Category: Liu, C I]]
[[Category: Wang, A H.J]]
[[Category: Cellulase]]
[[Category: Glycosyl hydrolase]]
[[Category: Hydrolase]]