6q1i - Revision history

OCA at 07:39, 11 October 2023

OCA — Wed, 11 Oct 2023 07:39:27 GMT

←Older revision		Revision as of 07:39, 11 October 2023
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	<StructureSection load='6q1i' size='340' side='right'caption='[[6q1i]], [[Resolution\|resolution]] 1.35Å' scene=''>		<StructureSection load='6q1i' size='340' side='right'caption='[[6q1i]], [[Resolution\|resolution]] 1.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6q1i]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"clostridium_longisporum"_hungate "clostridium~~ longisporum~~" hungate~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q1I OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6Q1I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6q1i]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_longisporum Clostridium longisporum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q1I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6Q1I FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[4im4\|4im4]], [[6mq4\|6mq4]], [[6pz7\|6pz7]], [[6ui3\|6ui3]], [[6wqp\|6wqp]], [[6wqy\|6wqy]], [[6xrk\|6xrk]], [[6xso\|6xso]], [[6xsu\|6xsu]]</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]] 1.35Å</td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~">~~<b>~~[[~~Gene~~\|~~Gene:~~]]~~</b></td><td class="sblockDat">celA ([http://www~~.~~ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info~~&~~srchmode=5&id=1523 "Clostridium longisporum" Hungate])</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=6q1i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q1i OCA], [https://pdbe.org/6q1i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6q1i RCSB], [https://www.ebi.ac.uk/pdbsum/6q1i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6q1i ProSAT]</span></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cellulase Cellulase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.4 3.2.1.4] </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=6q1i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q1i OCA], [~~http~~://pdbe.org/6q1i PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6q1i RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6q1i PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6q1i ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/GUNA_CLOLO GUNA_CLOLO]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Broad-specificity glycoside hydrolases (GHs) contribute to plant biomass hydrolysis by degrading a diverse range of polysaccharides, making them useful catalysts for renewable energy and biocommodity production. Discovery of new GHs with improved kinetic parameters or more tolerant substrate-binding sites could increase the efficiency of renewable bioenergy production even further. GH5 has over 50 subfamilies exhibiting selectivities for reaction with beta-(1,4)-linked oligo- and polysaccharides. Among these, subfamily 4 (GH5_4) contains numerous broad-selectivity endoglucanases that hydrolyze cellulose, xyloglucan, and mixed-linkage glucans. We previously surveyed the whole subfamily and found over 100 new broad-specificity endoglucanases, although the structural origins of broad specificity remained unclear. A mechanistic understanding of GH5_4 substrate specificity would help inform the best protein design strategies and the most appropriate industrial application of broad-specificity endoglucanases. Here we report structures of 10 new GH5_4 enzymes from cellulolytic microbes and characterize their substrate selectivity using normalized reducing sugar assays and MS. We found that GH5_4 enzymes have the highest catalytic efficiency for hydrolysis of xyloglucan, glucomannan, and soluble beta-glucans, with opportunistic secondary reactions on cellulose, mannan, and xylan. The positions of key aromatic residues determine the overall reaction rate and breadth of substrate tolerance, and they contribute to differences in oligosaccharide cleavage patterns. Our new composite model identifies several critical structural features that confer broad specificity and may be readily engineered into existing industrial enzymes. We demonstrate that GH5_4 endoglucanases can have broad specificity without sacrificing high activity, making them a valuable addition to the biomass deconstruction toolset.
		+
		+	A structural and kinetic survey of GH5_4 endoglucanases reveals determinants of broad substrate specificity and opportunities for biomass hydrolysis.,Glasgow EM, Kemna EI, Bingman CA, Ing N, Deng K, Bianchetti CM, Takasuka TE, Northen TR, Fox BG J Biol Chem. 2020 Dec 18;295(51):17752-17769. doi: 10.1074/jbc.RA120.015328. PMID:33454012<ref>PMID:33454012</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6q1i" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Glucanase 3D structures\|Glucanase 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Clostridium longisporum ~~hungate]]~~	+	[[Category: Clostridium longisporum]]
-	~~[[Category: Cellulase~~]]	+
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bianchetti~~, C M~~]]	+	[[Category: Bianchetti CM]]
-	[[Category: Bingman~~, C A~~]]	+	[[Category: Bingman CA]]
-	[[Category: Fox~~, B G]]~~	+	[[Category: Fox BG]]
-	~~[[Category: Endoglucanase]]~~	+
-	~~[[Category: Gh5-4]]~~	+
-	~~[[Category: Glbrc]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 08:34, 21 October 2020

OCA — Wed, 21 Oct 2020 08:34:14 GMT

←Older revision		Revision as of 08:34, 21 October 2020
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-	==GH5-4 broad specificity ~~endoglucanasefrom Clostridum acetobutylicum~~==	+	==GH5-4 broad specificity endoglucanase from Clostrdium longisporum==
-	<StructureSection load='6q1i' size='340' side='right'caption='[[6q1i]]' scene=''>	+	<StructureSection load='6q1i' size='340' side='right'caption='[[6q1i]], [[Resolution\|resolution]] 1.35Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q1I OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6Q1I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6q1i]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"clostridium_longisporum"_hungate "clostridium longisporum" hungate]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q1I OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6Q1I FirstGlance]. <br>
-	</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=6q1i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q1i OCA], [http://pdbe.org/6q1i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6q1i RCSB], [http://www.ebi.ac.uk/pdbsum/6q1i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6q1i ProSAT]</span></td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4im4\|4im4]], [[6mq4\|6mq4]], [[6pz7\|6pz7]], [[6ui3\|6ui3]], [[6wqp\|6wqp]], [[6wqy\|6wqy]], [[6xrk\|6xrk]], [[6xso\|6xso]], [[6xsu\|6xsu]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">celA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1523 "Clostridium longisporum" Hungate])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Cellulase Cellulase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.4 3.2.1.4] </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=6q1i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q1i OCA], [http://pdbe.org/6q1i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6q1i RCSB], [http://www.ebi.ac.uk/pdbsum/6q1i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6q1i ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Clostridium longisporum hungate]]
		+	[[Category: Cellulase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Bianchetti CM]]	+	[[Category: Bianchetti, C M]]
-	[[Category: Bingman CA]]	+	[[Category: Bingman, C A]]
-	[[Category: Fox BG]]	+	[[Category: Fox, B G]]
		+	[[Category: Endoglucanase]]
		+	[[Category: Gh5-4]]
		+	[[Category: Glbrc]]
		+	[[Category: Hydrolase]]

OCA at 05:32, 5 August 2020

OCA — Wed, 05 Aug 2020 05:32:53 GMT

←Older revision		Revision as of 05:32, 5 August 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6q1i is ~~ON HOLD until Paper Publication~~	+	==GH5-4 broad specificity endoglucanasefrom Clostridum acetobutylicum==
-		+	<StructureSection load='6q1i' size='340' side='right'caption='[[6q1i]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6Q1I OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6Q1I FirstGlance]. <br>
-	~~Description~~:	+	</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=6q1i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6q1i OCA], [http://pdbe.org/6q1i PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6q1i RCSB], [http://www.ebi.ac.uk/pdbsum/6q1i PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6q1i ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Bianchetti CM]]
		+	[[Category: Bingman CA]]
		+	[[Category: Fox BG]]

OCA at 13:34, 20 November 2019

OCA — Wed, 20 Nov 2019 13:34:35 GMT

←Older revision		Revision as of 13:34, 20 November 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6q1i is ON HOLD	+	The entry 6q1i is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6q1i" [edit=sysop:move=sysop]

OCA — Wed, 14 Aug 2019 15:04:49 GMT

Protected "6q1i" [edit=sysop:move=sysop]

←Older revision

Revision as of 15:04, 14 August 2019

OCA: New page: '''Unreleased structure''' The entry 6q1i is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 14 Aug 2019 15:04:47 GMT

New page: '''Unreleased structure''' The entry 6q1i is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6q1i is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]