5ayb: Difference between revisions

Line 1:

~~'''Unreleased structure'''~~

~~The entry~~ 5ayb is ~~ON HOLD until Paper~~ Publication

==Crystal structure of GH1 Beta-Glucosidase TD2F2 N223G mutant==

== Structural highlights ==

<table><tr><td colspan='2'>[[5ayb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AYB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AYB FirstGlance]. <br>

</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>

<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-glucosidase Beta-glucosidase], with EC number [http://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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ayb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ayb OCA], [http://pdbe.org/5ayb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ayb RCSB], [http://www.ebi.ac.uk/pdbsum/5ayb PDBsum]</span></td></tr>

</table>

== Publication Abstract from PubMed ==

beta-Glucosidase Td2F2 isolated from a compost metagenome has high glucose tolerance and transglycosylation activity. In this study, we determined the high-resolution crystal structure of Td2F2. It has a unique structure at the -1 subsite that is important for substrate specificity but not for glucose tolerance. To elucidate the mechanism(s) of glucose tolerance, we isolated a glucose-sensitive Td2F2 mutant using random mutagenesis. In this mutant, Asn223 residue located between subsites +1 and +2 was mutated. The Asn223 mutation resulted in reduced glucose tolerance and transglycosylation activity, and drastically changed substrate specificity. These results indicate that the structure between subsites +1 and +2 is critical for the glucose tolerance and substrate specificity of Td2F2. Our findings shed light on the glucose tolerance and transglycosylation activity mechanisms of glycoside hydrolase family 1 beta-glucosidases. This article is protected by copyright. All rights reserved.

~~Authors: Jo~~, ~~T., Manninen, J.A~~., Matsuzawa, T., Uchiyama, T., ~~Yaoi, K.~~, Arakawa, T., Fushinobu, S.

Crystal structure and identification of a key amino acid for glucose tolerance, substrate specificity and transglycosylation activity of metagenomic beta-glucosidase Td2F2.,Matsuzawa T, Jo T, Uchiyama T, Manninen JA, Arakawa T, Miyazaki K, Fushinobu S, Yaoi K FEBS J. 2016 Apr 19. doi: 10.1111/febs.13743. PMID:27092463<ref>PMID:27092463</ref>

~~Description~~:

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>

~~[[Category: Unreleased Structures]]~~

</div>

[[Category: ~~Uchiyama, T~~]]

== References ==

__TOC__

</StructureSection>

[[Category: Beta-glucosidase]]

[[Category: Arakawa, T]]

[[Category: Fushinobu, S]]

[[Category: Jo, T]]

[[Category: Manninen, J A]]

[[Category: Matsuzawa, T]]

[[Category: Uchiyama, T]]

[[Category: Yaoi, K]]

[[Category: ~~Manninen, J.A~~]]

[[Category: Hydrolase]]

[[Category: ~~Jo, T~~]]

[[Category: Tim barrel]]

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@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
-The entry 5ayb is ON HOLD  until Paper Publication
+==Crystal structure of GH1 Beta-Glucosidase TD2F2 N223G mutant==
+<StructureSection load='5ayb' size='340' side='right' caption='[[5ayb]], [[Resolution|resolution]] 1.80&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[5ayb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5AYB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5AYB FirstGlance]. <br>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=NHE:2-[N-CYCLOHEXYLAMINO]ETHANE+SULFONIC+ACID'>NHE</scene></td></tr>
+<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Beta-glucosidase Beta-glucosidase], with EC number [http://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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5ayb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ayb OCA], [http://pdbe.org/5ayb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ayb RCSB], [http://www.ebi.ac.uk/pdbsum/5ayb PDBsum]</span></td></tr>
+</table>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+beta-Glucosidase Td2F2 isolated from a compost metagenome has high glucose tolerance and transglycosylation activity. In this study, we determined the high-resolution crystal structure of Td2F2. It has a unique structure at the -1 subsite that is important for substrate specificity but not for glucose tolerance. To elucidate the mechanism(s) of glucose tolerance, we isolated a glucose-sensitive Td2F2 mutant using random mutagenesis. In this mutant, Asn223 residue located between subsites +1 and +2 was mutated. The Asn223 mutation resulted in reduced glucose tolerance and transglycosylation activity, and drastically changed substrate specificity. These results indicate that the structure between subsites +1 and +2 is critical for the glucose tolerance and substrate specificity of Td2F2. Our findings shed light on the glucose tolerance and transglycosylation activity mechanisms of glycoside hydrolase family 1 beta-glucosidases. This article is protected by copyright. All rights reserved.
-Authors: Jo, T., Manninen, J.A., Matsuzawa, T., Uchiyama, T., Yaoi, K., Arakawa, T., Fushinobu, S.
+Crystal structure and identification of a key amino acid for glucose tolerance, substrate specificity and transglycosylation activity of metagenomic beta-glucosidase Td2F2.,Matsuzawa T, Jo T, Uchiyama T, Manninen JA, Arakawa T, Miyazaki K, Fushinobu S, Yaoi K FEBS J. 2016 Apr 19. doi: 10.1111/febs.13743. PMID:27092463<ref>PMID:27092463</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>
-[[Category: Uchiyama, T]]
+<div class="pdbe-citations 5ayb" style="background-color:#fffaf0;"></div>
+== References ==
+<references/>
+__TOC__
+</StructureSection>
+[[Category: Beta-glucosidase]]
 [[Category: Arakawa, T]]
 [[Category: Fushinobu, S]]
+[[Category: Jo, T]]
+[[Category: Manninen, J A]]
 [[Category: Matsuzawa, T]]
+[[Category: Uchiyama, T]]
 [[Category: Yaoi, K]]
-[[Category: Manninen, J.A]]
+[[Category: Hydrolase]]
-[[Category: Jo, T]]
+[[Category: Tim barrel]]