7wdn
From Proteopedia
(Difference between revisions)
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| - | '''Unreleased structure''' | ||
| - | + | ==Crystal structures of MeBglD2 in complex with various saccharides== | |
| + | <StructureSection load='7wdn' size='340' side='right'caption='[[7wdn]], [[Resolution|resolution]] 1.80Å' scene=''> | ||
| + | == Structural highlights == | ||
| + | <table><tr><td colspan='2'>[[7wdn]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Metagenome Metagenome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7WDN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7WDN FirstGlance]. <br> | ||
| + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene></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=7wdn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7wdn OCA], [https://pdbe.org/7wdn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7wdn RCSB], [https://www.ebi.ac.uk/pdbsum/7wdn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7wdn ProSAT]</span></td></tr> | ||
| + | </table> | ||
| + | == Function == | ||
| + | [https://www.uniprot.org/uniprot/A0A1E1FFN6_9ZZZZ A0A1E1FFN6_9ZZZZ] | ||
| + | <div style="background-color:#fffaf0;"> | ||
| + | == Publication Abstract from PubMed == | ||
| + | Metagenomic MeBglD2 is a glycoside hydrolase family 1 (GH1) beta-glycosidase that has beta-glucosidase, beta-fucosidase, and beta-galactosidase activities, and is highly activated in the presence of monosaccharides and disaccharides. The beta-glucosidase activity of MeBglD2 increases in a cellobiose concentration-dependent manner and is not inhibited by a high concentration of D-glucose or cellobiose. Previously, we solved the crystal structure of MeBglD2 and designed a thermostable mutant; however, the mechanism of substrate recognition of MeBglD2 remains poorly understood. In this paper, we report the X-ray crystal structures of MeBglD2 complexed with various saccharides, such as D-glucose, D-xylose, cellobiose, and maltose. The results showed that subsite - 1 of MeBglD2, which contained two catalytic glutamate residues (a nucleophilic Glu356 and an acid/base Glu170) was common to other GH1 enzymes, but the positive subsites (+ 1 and + 2) had different binding modes depending on the type of sugar. Three residues (Glu183, Asn227, and Asn229), located at the positive subsites of MeBglD2, were involved in substrate specificity toward cellobiose and/or chromogenic substrates in the presence of additive sugars. The docking simulation of MeBglD2-cellobiose indicated that Asn229 and Trp329 play important roles in the recognition of + 1 D-glucose in cellobiose. Our findings provide insights into the unique substrate recognition mechanism of GH1, which can incorporate a variety of saccharides into its positive subsites. KEY POINTS: * Metagenomic glycosidase, MeBglD2, recognizes various saccharides * Structures of metagenomic MeBglD2 complexed with various saccharides are determined * MeBglD2 has a unique substrate recognition mechanism at the positive subsites. | ||
| - | + | Crystal structure of metagenomic beta-glycosidase MeBglD2 in complex with various saccharides.,Matsuzawa T, Watanabe M, Nakamichi Y, Akita H, Yaoi K Appl Microbiol Biotechnol. 2022 Jun;106(12):4539-4551. doi: , 10.1007/s00253-022-12018-6. Epub 2022 Jun 20. PMID:35723691<ref>PMID:35723691</ref> | |
| - | + | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |
| - | [[Category: | + | </div> |
| + | <div class="pdbe-citations 7wdn" style="background-color:#fffaf0;"></div> | ||
| + | == References == | ||
| + | <references/> | ||
| + | __TOC__ | ||
| + | </StructureSection> | ||
| + | [[Category: Large Structures]] | ||
| + | [[Category: Metagenome]] | ||
| + | [[Category: Akita H]] | ||
| + | [[Category: Matsuzawa T]] | ||
| + | [[Category: Nakamichi Y]] | ||
| + | [[Category: Watanabe M]] | ||
| + | [[Category: Yaoi K]] | ||
Revision as of 06:58, 8 February 2023
Crystal structures of MeBglD2 in complex with various saccharides
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