5gxy - Revision history

OCA at 11:45, 2 August 2023

OCA — Wed, 02 Aug 2023 11:45:43 GMT

←Older revision		Revision as of 11:45, 2 August 2023
Line 3:		Line 3:
	<StructureSection load='5gxy' size='340' side='right'caption='[[5gxy]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='5gxy' size='340' side='right'caption='[[5gxy]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gxy]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"ruminiclostridium_thermocellum"_(viljoen_et_al._1926)_yutin_and_galperin_2013 "ruminiclostridium thermocellum" (viljoen et al. 1926) yutin and galperin 2013~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GXY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5GXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gxy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Acetivibrio_thermocellus Acetivibrio thermocellus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GXY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5GXY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7PE:2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL'>7PE</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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]] 1.7Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5gy1\|5gy1]], [[5gy0\|5gy0]], [[5gxz\|5gxz]], [[5gxx\|5gxx]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=7PE:2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL'>7PE</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=PRD_900005:beta-cellobiose'>PRD_900005</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">celQ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1515 "Ruminiclostridium thermocellum" (Viljoen et al. 1926) Yutin and Galperin 2013])</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=5gxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gxy OCA], [https://pdbe.org/5gxy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5gxy RCSB], [https://www.ebi.ac.uk/pdbsum/5gxy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5gxy 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=5gxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gxy OCA], [~~http~~://pdbe.org/5gxy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5gxy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5gxy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5gxy ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9AJF8_ACETH Q9AJF8_ACETH]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 21:

	==See Also==		==See Also==
-	*[[Glucanase\|Glucanase]]	+	*[[Glucanase 3D structures\|Glucanase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Acetivibrio thermocellus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Jeng~~, W Y~~]]	+	[[Category: Jeng WY]]
-	[[Category: Liu~~, C I~~]]	+	[[Category: Liu CI]]
-	[[Category: Wang~~, A H.J]]~~	+	[[Category: Wang AHJ]]
-	~~[[Category: Cellulase]]~~	+
-	~~[[Category: Cellulosome]]~~	+
-	~~[[Category: Glycosyl hydrolase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 07:39, 10 April 2019

OCA — Wed, 10 Apr 2019 07:39:16 GMT

←Older revision		Revision as of 07:39, 10 April 2019
Line 1:		Line 1:

	==Crystal structure of endoglucanase CelQ from Clostridium thermocellum complexed with cellobiose and Tris==		==Crystal structure of endoglucanase CelQ from Clostridium thermocellum complexed with cellobiose and Tris==
-	<StructureSection load='5gxy' size='340' side='right' caption='[[5gxy]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='5gxy' size='340' side='right'caption='[[5gxy]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5gxy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"ruminiclostridium_thermocellum"_yutin_and_galperin_2013 "ruminiclostridium thermocellum" yutin and galperin 2013]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GXY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5gxy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"ruminiclostridium_thermocellum"_(viljoen_et_al._1926)_yutin_and_galperin_2013 "ruminiclostridium thermocellum" (viljoen et al. 1926) yutin and galperin 2013]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GXY FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7PE:2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL'>7PE</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7PE:2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL'>7PE</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5gy1\|5gy1]], [[5gy0\|5gy0]], [[5gxz\|5gxz]], [[5gxx\|5gxx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5gy1\|5gy1]], [[5gy0\|5gy0]], [[5gxz\|5gxz]], [[5gxx\|5gxx]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">celQ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1515 "Ruminiclostridium thermocellum" Yutin and Galperin 2013])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">celQ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1515 "Ruminiclostridium thermocellum" (Viljoen et al. 1926) Yutin and Galperin 2013])</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=5gxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gxy OCA], [http://pdbe.org/5gxy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gxy RCSB], [http://www.ebi.ac.uk/pdbsum/5gxy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gxy 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=5gxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gxy OCA], [http://pdbe.org/5gxy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gxy RCSB], [http://www.ebi.ac.uk/pdbsum/5gxy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gxy ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Endoglucanase CtCel9Q is one of the enzyme components of the cellulosome, which is an active cellulase system in the thermophile Clostridium thermocellum. The precursor form of CtCel9Q comprises a signal peptide, a glycoside hydrolase family 9 catalytic domain, a type 3c carbohydrate-binding module (CBM), and a type I dockerin domain. Here, we report the crystal structures of C-terminally truncated CtCel9Q (CtCel9QDeltac) complexed with Tris, Tris+cellobiose, cellobiose+cellotriose, cellotriose, and cellotetraose at resolutions of 1.50, 1.70, 2.05, 2.05 and 1.75 A, respectively. CtCel9QDeltac forms a V-shaped homodimer through residues Lys529-Glu542 on the type 3c CBM, which pairs two beta-strands (beta4 and beta5 of the CBM). In addition, a disulfide bond was formed between the two Cys535 residues of the protein monomers in the asymmetric unit. The structures allow the identification of four minus (-) subsites and two plus (+) subsites; this is important for further understanding the structural basis of cellulose binding and hydrolysis. In the oligosaccharide-free and cellobiose-bound CtCel9QDeltac structures, a Tris molecule was found to be bound to three catalytic residues of CtCel9Q and occupied subsite -1 of the CtCel9Q active-site cleft. Moreover, the enzyme activity assay in the presence of 100 mm Tris showed that the Tris almost completely suppressed CtCel9Q hydrolase activity.
		+
		+	Crystal Structures of the C-Terminally Truncated Endoglucanase Cel9Q from Clostridium thermocellum Complexed with Cellodextrins and Tris.,Jeng WY, Liu CI, Lu TJ, Lin HJ, Wang NC, Wang AH Chembiochem. 2019 Jan 18;20(2):295-307. doi: 10.1002/cbic.201800789. Epub 2019, Jan 14. PMID:30609216<ref>PMID:30609216</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5gxy" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Glucanase\|Glucanase]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ruminiclostridium thermocellum yutin and galperin 2013~~]]	+	[[Category: Large Structures]]
	[[Category: Jeng, W Y]]		[[Category: Jeng, W Y]]
	[[Category: Liu, C I]]		[[Category: Liu, C I]]

OCA at 11:43, 6 November 2017

OCA — Mon, 06 Nov 2017 11:43:51 GMT

←Older revision		Revision as of 11:43, 6 November 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5gxy is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of endoglucanase CelQ from Clostridium thermocellum complexed with cellobiose and Tris==
-		+	<StructureSection load='5gxy' size='340' side='right' caption='[[5gxy]], [[Resolution\|resolution]] 1.70Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5gxy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"ruminiclostridium_thermocellum"_yutin_and_galperin_2013 "ruminiclostridium thermocellum" yutin and galperin 2013]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5GXY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5GXY FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=7PE:2-(2-(2-(2-(2-(2-ETHOXYETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHOXY)ETHANOL'>7PE</scene>, <scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=BR:BROMIDE+ION'>BR</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5gy1\|5gy1]], [[5gy0\|5gy0]], [[5gxz\|5gxz]], [[5gxx\|5gxx]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">celQ ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1515 "Ruminiclostridium thermocellum" Yutin and Galperin 2013])</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=5gxy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5gxy OCA], [http://pdbe.org/5gxy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5gxy RCSB], [http://www.ebi.ac.uk/pdbsum/5gxy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5gxy ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Ruminiclostridium thermocellum yutin and galperin 2013]]
		+	[[Category: Jeng, W Y]]
		+	[[Category: Liu, C I]]
		+	[[Category: Wang, A H.J]]
		+	[[Category: Cellulase]]
		+	[[Category: Cellulosome]]
		+	[[Category: Glycosyl hydrolase]]
		+	[[Category: Hydrolase]]

OCA at 13:05, 26 October 2016

OCA — Wed, 26 Oct 2016 13:05:07 GMT

←Older revision		Revision as of 13:05, 26 October 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors:		Authors:

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

OCA — Mon, 03 Oct 2016 11:33:30 GMT

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

←Older revision

Revision as of 11:33, 3 October 2016

OCA: New page: '''Unreleased structure''' The entry 5gxy is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Mon, 03 Oct 2016 11:33:29 GMT

New page: '''Unreleased structure''' The entry 5gxy is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5gxy is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]