5gv1 - Revision history

OCA at 11:43, 2 August 2023

2023-08-02T11:43:26Z

←Older revision		Revision as of 11:43, 2 August 2023
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	<StructureSection load='5gv1' size='340' side='right'caption='[[5gv1]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='5gv1' size='340' side='right'caption='[[5gv1]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gv1]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Termite_gut_metagenome Termite gut metagenome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GV1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5GV1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gv1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Termite_gut_metagenome Termite gut metagenome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GV1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GV1 FirstGlance]. <br>
-	</td></tr><tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"~~><span class~~=~~'plainlinks'~~>~~[http://en.wikipedia.org/wiki/Endo~~-1,~~4-beta-xylanase Endo-1,4-beta-xylanase~~]~~, with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.~~1.~~8 3.2.1.8] </span>~~</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]] 1.5Å</td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5gv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gv1 OCA], [~~http~~://pdbe.org/5gv1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5gv1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5gv1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5gv1 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=5gv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gv1 OCA], [https://pdbe.org/5gv1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5gv1 RCSB], [https://www.ebi.ac.uk/pdbsum/5gv1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5gv1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Endo-1,4-beta-xylanase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Termite gut metagenome]]		[[Category: Termite gut metagenome]]
-	[[Category: Boonyapakorn, K]]	+	[[Category: Boonyapakorn K]]
-	[[Category: Chitnumsub, P]]	+	[[Category: Chitnumsub P]]
-	[[Category: Jaruwat, A]]	+	[[Category: Jaruwat A]]
-	[[Category: Noytanom, K]]	+	[[Category: Noytanom K]]
-	~~[[Category: 4-beta-xylanase]]~~	+
-	~~[[Category: Endo-1]]~~	+
-	~~[[Category: Gh11 xylanase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 06:43, 20 May 2020

2020-05-20T06:43:59Z

←Older revision		Revision as of 06:43, 20 May 2020
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	==Crystal structure of ENZbleach xylanase wild type==		==Crystal structure of ENZbleach xylanase wild type==
-	<StructureSection load='5gv1' size='340' side='right' caption='[[5gv1]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='5gv1' size='340' side='right'caption='[[5gv1]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gv1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Termite_gut_metagenome Termite gut metagenome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GV1 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5GV1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gv1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Termite_gut_metagenome Termite gut metagenome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GV1 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5GV1 FirstGlance]. <br>
	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </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=5gv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gv1 OCA], [http://pdbe.org/5gv1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gv1 RCSB], [http://www.ebi.ac.uk/pdbsum/5gv1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gv1 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5gv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gv1 OCA], [http://pdbe.org/5gv1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gv1 RCSB], [http://www.ebi.ac.uk/pdbsum/5gv1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gv1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</StructureSection>		</StructureSection>
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
		+	[[Category: Large Structures]]
	[[Category: Termite gut metagenome]]		[[Category: Termite gut metagenome]]
	[[Category: Boonyapakorn, K]]		[[Category: Boonyapakorn, K]]

OCA at 17:17, 15 November 2017

2017-11-15T17:17:48Z

←Older revision		Revision as of 17:17, 15 November 2017
Line 3:		Line 3:
	<StructureSection load='5gv1' size='340' side='right' caption='[[5gv1]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='5gv1' size='340' side='right' caption='[[5gv1]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gv1]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GV1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GV1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gv1]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Termite_gut_metagenome Termite gut metagenome]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GV1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GV1 FirstGlance]. <br>
	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </span></td></tr>		</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </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=5gv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gv1 OCA], [http://pdbe.org/5gv1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gv1 RCSB], [http://www.ebi.ac.uk/pdbsum/5gv1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gv1 ProSAT]</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=5gv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gv1 OCA], [http://pdbe.org/5gv1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gv1 RCSB], [http://www.ebi.ac.uk/pdbsum/5gv1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gv1 ProSAT]</span></td></tr>
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	</StructureSection>		</StructureSection>
	[[Category: Endo-1,4-beta-xylanase]]		[[Category: Endo-1,4-beta-xylanase]]
		+	[[Category: Termite gut metagenome]]
	[[Category: Boonyapakorn, K]]		[[Category: Boonyapakorn, K]]
	[[Category: Chitnumsub, P]]		[[Category: Chitnumsub, P]]

OCA at 04:13, 30 August 2017

2017-08-30T04:13:27Z

←Older revision		Revision as of 04:13, 30 August 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5gv1 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of ENZbleach xylanase wild type==
		+	<StructureSection load='5gv1' size='340' side='right' caption='[[5gv1]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5gv1]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GV1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GV1 FirstGlance]. <br>
		+	</td></tr><tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Endo-1,4-beta-xylanase Endo-1,4-beta-xylanase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.8 3.2.1.8] </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=5gv1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gv1 OCA], [http://pdbe.org/5gv1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gv1 RCSB], [http://www.ebi.ac.uk/pdbsum/5gv1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gv1 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In the pulp bleaching industry, enzymes with robust activity at high pH and temperatures are desirable for facilitating the pre-bleaching process with simplified processing and minimal use of chlorinated compounds. To engineer an enzyme for this purpose, we determined the crystal structure of the Xyn12.2 xylanase, a xylan-hydrolyzing enzyme derived from the termite gut symbiont metagenome, as the basis for structure-based protein engineering to improve Xyn12.2 stability in high heat and alkaline conditions. Engineered cysteine pairs that generated exterior disulfide bonds increased the kcat of Xyn12.2 variants and melting temperature at all tested conditions. These improvements led to up to 4.2-fold increases in catalytic efficiency at pH 9.0, 50 degrees C for 1h and up to 3-fold increases at 60 degrees C. The most effective variants, XynTT and XynTTTE, exhibited 2-3-fold increases in bagasse hydrolysis at pH 9.0 and 60 degrees C compared to the wild-type enzyme. Overall, engineering arginines and phenylalanines for increased pKa and hydrogen bonding improved enzyme catalytic efficiency at high stringency conditions. These modifications were the keys to enhancing thermostability and alkaliphilicity in our enzyme variants, with XynTT and XynTTTE being especially promising for their application to the pulp and paper industry.

-	~~Authors: Chitnumsub~~, P., ~~Jaruwat~~, A., ~~Boonyapakorn~~, K., ~~Noytanom~~, K.	+	Structure-based protein engineering for thermostable and alkaliphilic enhancement of endo-beta-1,4-xylanase for applications in pulp bleaching.,Boonyapakron K, Jaruwat A, Liwnaree B, Nimchua T, Champreda V, Chitnumsub P J Biotechnol. 2017 Jul 31. pii: S0168-1656(17)31572-9. doi:, 10.1016/j.jbiotec.2017.07.035. PMID:28774672<ref>PMID:28774672</ref>

-	~~Description: Crystal structure~~ of ~~ENZbleach~~ xylanase ~~wild type~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5gv1" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Endo-1,4-beta-xylanase]]
		+	[[Category: Boonyapakorn, K]]
		+	[[Category: Chitnumsub, P]]
	[[Category: Jaruwat, A]]		[[Category: Jaruwat, A]]
	[[Category: Noytanom, K]]		[[Category: Noytanom, K]]
-	[[Category: ~~Chitnumsub, P~~]]	+	[[Category: 4-beta-xylanase]]
-	[[Category: ~~Boonyapakorn, K~~]]	+	[[Category: Endo-1]]
		+	[[Category: Gh11 xylanase]]
		+	[[Category: Hydrolase]]

OCA at 08:39, 21 September 2016

2016-09-21T08:39:53Z

←Older revision		Revision as of 08:39, 21 September 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5gv1 is ON HOLD	+	The entry 5gv1 is ON HOLD until Paper Publication

	Authors: Chitnumsub, P., Jaruwat, A., Boonyapakorn, K., Noytanom, K.		Authors: Chitnumsub, P., Jaruwat, A., Boonyapakorn, K., Noytanom, K.

OCA: Protected "5gv1" [edit=sysop:move=sysop]

2016-09-09T12:07:09Z

Protected "5gv1" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:07, 9 September 2016

OCA: New page: '''Unreleased structure''' The entry 5gv1 is ON HOLD Authors: Chitnumsub, P., Jaruwat, A., Boonyapakorn, K., Noytanom, K. Description: Crystal structure of ENZbleach xylanase wild type...

2016-09-09T12:07:07Z

New page: '''Unreleased structure''' The entry 5gv1 is ON HOLD Authors: Chitnumsub, P., Jaruwat, A., Boonyapakorn, K., Noytanom, K. Description: Crystal structure of ENZbleach xylanase wild type...

New page

'''Unreleased structure'''

The entry 5gv1 is ON HOLD

Authors: Chitnumsub, P., Jaruwat, A., Boonyapakorn, K., Noytanom, K.

Description: Crystal structure of ENZbleach xylanase wild type
[[Category: Unreleased Structures]]
[[Category: Jaruwat, A]]
[[Category: Noytanom, K]]
[[Category: Chitnumsub, P]]
[[Category: Boonyapakorn, K]]