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| | <StructureSection load='3ay7' size='340' side='right'caption='[[3ay7]], [[Resolution|resolution]] 1.90Å' scene=''> | | <StructureSection load='3ay7' size='340' side='right'caption='[[3ay7]], [[Resolution|resolution]] 1.90Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[3ay7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_14581 Atcc 14581]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AY7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3AY7 FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[3ay7]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Priestia_megaterium Priestia megaterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3AY7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3AY7 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></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9Å</td></tr> |
| - | <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3aus|3aus]], [[3aut|3aut]], [[3auu|3auu]], [[3ay6|3ay6]]</div></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></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">gdhIV ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1404 ATCC 14581])</td></tr> | + | |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Glucose_1-dehydrogenase Glucose 1-dehydrogenase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.1.1.47 1.1.1.47] </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=3ay7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ay7 OCA], [https://pdbe.org/3ay7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ay7 RCSB], [https://www.ebi.ac.uk/pdbsum/3ay7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ay7 ProSAT]</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=3ay7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ay7 OCA], [https://pdbe.org/3ay7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ay7 RCSB], [https://www.ebi.ac.uk/pdbsum/3ay7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ay7 ProSAT]</span></td></tr> |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/DHG4_PRIMG DHG4_PRIMG] |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| - | [[Category: Atcc 14581]] | |
| - | [[Category: Glucose 1-dehydrogenase]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Nishioka, T]] | + | [[Category: Priestia megaterium]] |
| - | [[Category: Nishiya, Y]] | + | [[Category: Nishioka T]] |
| - | [[Category: Tamura, T]]
| + | [[Category: Nishiya Y]] |
| - | [[Category: Yasutake, Y]] | + | [[Category: Tamura T]] |
| - | [[Category: Cytosol]] | + | [[Category: Yasutake Y]] |
| - | [[Category: Nucleotide binding]] | + | |
| - | [[Category: Oxidation-reduction process]]
| + | |
| - | [[Category: Oxidoreductase]]
| + | |
| - | [[Category: Rossmann fold]]
| + | |
| Structural highlights
Function
DHG4_PRIMG
Publication Abstract from PubMed
Bacillus megaterium IAM 1030 (Bacillus sp. JCM 20016) possesses four d-glucose 1-dehydrogenase isozymes (BmGlcDH-I, -II, -III and -IV) that belong to the short-chain dehydrogenase/reductase superfamily. The BmGlcDHs are currently used for a clinical assay to examine blood glucose levels. Of these four isozymes, BmGlcDH-IV has relatively high thermostability and catalytic activity, but the disadvantage of its broad substrate specificity remains to be overcome. Here, we describe the crystal structures of BmGlcDH-IV in ligand-free, NADH-bound and beta-d-glucose-bound forms to a resolution of 2.0 A. No major conformational differences were found among these structures. The structure of BmGlcDH-IV in complex with beta-d-glucose revealed that the carboxyl group at the C-terminus, derived from a neighboring subunit, is inserted into the active-site pocket and directly interacts with beta-d-glucose. A site-directed mutagenic study showed that destabilization of the BmGlcDH-IV C-terminal region by substitution with more bulky and hydrophobic amino acid residues greatly affects the activity of the enzyme, as well as its thermostability and substrate specificity. Of the six mutants created, the G259A variant exhibited the narrowest substrate specificity, whilst retaining comparable catalytic activity and thermostability to the wild-type enzyme. Database The atomic coordinates and structure factor amplitudes for BmGlcDH-IV in ligand-free form, in complex with NADH, in complex with d-glucose, G259A mutant in ligand-free form, and A258F mutant in complex with d-glucose and NADH were deposited in the RCSB Protein Data Bank (http://www.rcsb.org) under the accession codes 3AUS, 3AUT, 3AUU, 3AY6 and 3AY7, respectively Structured digital abstract * BmGlcDH-IV and BmGlcDH-IV bind by x-ray crystallography (View Interaction: 1, 2).
Structure-guided mutagenesis for the improvement of substrate specificity of Bacillus megaterium glucose 1-dehydrogenase IV.,Nishioka T, Yasutake Y, Nishiya Y, Tamura T FEBS J. 2012 Sep;279(17):3264-75. doi: 10.1111/j.1742-4658.2012.08713.x. Epub, 2012 Aug 17. PMID:22804868[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Nishioka T, Yasutake Y, Nishiya Y, Tamura T. Structure-guided mutagenesis for the improvement of substrate specificity of Bacillus megaterium glucose 1-dehydrogenase IV. FEBS J. 2012 Sep;279(17):3264-75. doi: 10.1111/j.1742-4658.2012.08713.x. Epub, 2012 Aug 17. PMID:22804868 doi:http://dx.doi.org/10.1111/j.1742-4658.2012.08713.x
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