5yj6 - Revision history

OCA at 08:31, 22 November 2023

OCA — Wed, 22 Nov 2023 08:31:48 GMT

←Older revision		Revision as of 08:31, 22 November 2023
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	<StructureSection load='5yj6' size='340' side='right'caption='[[5yj6]], [[Resolution\|resolution]] 1.43Å' scene=''>		<StructureSection load='5yj6' size='340' side='right'caption='[[5yj6]], [[Resolution\|resolution]] 1.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yj6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YJ6 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5YJ6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yj6]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Acetivibrio_thermocellus_DSM_1313 Acetivibrio thermocellus DSM 1313]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YJ6 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YJ6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=33O:3,6,9,12,15,18,21,24,27,30,33,36-DODECAOXAOCTATRIACONTANE-1,38-DIOL'>33O</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]] 1.43Å</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=5yj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yj6 OCA], [~~http~~://pdbe.org/5yj6 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5yj6 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5yj6 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5yj6 ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=33O:3,6,9,12,15,18,21,24,27,30,33,36-DODECAOXAOCTATRIACONTANE-1,38-DIOL'>33O</scene></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=5yj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yj6 OCA], [https://pdbe.org/5yj6 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yj6 RCSB], [https://www.ebi.ac.uk/pdbsum/5yj6 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yj6 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/C7ED31_ACET1 C7ED31_ACET1]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Acetivibrio thermocellus DSM 1313]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cui, Q]]	+	[[Category: Cui Q]]
-	[[Category: Dong, S]]	+	[[Category: Dong S]]
-	[[Category: Feng~~, Y G~~]]	+	[[Category: Feng YG]]
-	[[Category: Li~~, R M~~]]	+	[[Category: Li RM]]
-	[[Category: Liu~~, S Y~~]]	+	[[Category: Liu SY]]
-	[[Category: Liu~~, Y J]]~~	+	[[Category: Liu YJ]]
-	~~[[Category: Activity]]~~	+
-	~~[[Category: Cellulosome]]~~	+
-	~~[[Category: Exocellulase]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Substrate specificity~~]]	+

OCA at 09:20, 21 October 2020

OCA — Wed, 21 Oct 2020 09:20:28 GMT

←Older revision		Revision as of 09:20, 21 October 2020
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	==The exoglucanase CelS from Clostridium thermocellum==		==The exoglucanase CelS from Clostridium thermocellum==
-	<StructureSection load='5yj6' size='340' side='right' caption='[[5yj6]], [[Resolution\|resolution]] 1.43Å' scene=''>	+	<StructureSection load='5yj6' size='340' side='right'caption='[[5yj6]], [[Resolution\|resolution]] 1.43Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5yj6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5YJ6 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5yj6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5YJ6 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=33O:3,6,9,12,15,18,21,24,27,30,33,36-DODECAOXAOCTATRIACONTANE-1,38-DIOL'>33O</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=33O:3,6,9,12,15,18,21,24,27,30,33,36-DODECAOXAOCTATRIACONTANE-1,38-DIOL'>33O</scene></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=5yj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yj6 OCA], [http://pdbe.org/5yj6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yj6 RCSB], [http://www.ebi.ac.uk/pdbsum/5yj6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yj6 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=5yj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yj6 OCA], [http://pdbe.org/5yj6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yj6 RCSB], [http://www.ebi.ac.uk/pdbsum/5yj6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yj6 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: Large Structures]]
	[[Category: Cui, Q]]		[[Category: Cui, Q]]
	[[Category: Dong, S]]		[[Category: Dong, S]]

OCA at 05:54, 31 January 2018

OCA — Wed, 31 Jan 2018 05:54:32 GMT

←Older revision		Revision as of 05:54, 31 January 2018
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-	'''Unreleased structure'''

-	The ~~entry~~ 5yj6 is ~~ON HOLD until Oct 09 2019~~	+	==The exoglucanase CelS from Clostridium thermocellum==
		+	<StructureSection load='5yj6' size='340' side='right' caption='[[5yj6]], [[Resolution\|resolution]] 1.43Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5yj6]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5YJ6 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5YJ6 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=33O:3,6,9,12,15,18,21,24,27,30,33,36-DODECAOXAOCTATRIACONTANE-1,38-DIOL'>33O</scene></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=5yj6 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yj6 OCA], [http://pdbe.org/5yj6 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5yj6 RCSB], [http://www.ebi.ac.uk/pdbsum/5yj6 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5yj6 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Background: Clostridium thermocellum is considered one of the most efficient natural cellulose degraders because of its cellulosomal system. As the major exoglucanase of cellulosome in C. thermocellum, Cel48S plays key roles and influences the activity and features of cellulosome to a great extent. Thus, it is of great importance to reveal the enzymatic features of Cel48S. However, Cel48S has not been well performed due to difficulties in purifying either recombinant or native Cel48S proteins. Results: We observed that the soluble fraction of the catalytic domain of Cel48S (Cel48S_CD) obtained by heterologous expression in Escherichia coli and denaturation-refolding treatment contained a large portion of incorrectly folded proteins with low activity. Using a previously developed seamless genome-editing system for C. thermocellum, we achieved direct purification of Cel48S_CD from the culture supernatant of C. thermocellum DSM1313 by inserting a sequence encoding 12 successive histidine residues and a TAA stop codon immediately behind the GH domain of Cel48S. Based on the fully active protein, biochemical and structural analyses were performed to reveal its innate characteristics. The native Cel48S_CD showed high activity of 117.61 +/- 2.98 U/mg and apparent substrate preference for crystalline cellulose under the assay conditions. The crystal structure of the native GH48 protein revealed substrate-coupled changes in the residue conformation, indicating induced-fit effects between Cel48S_CD and substrates. Mass spectrum and crystal structural analyses suggested no significant posttranslational modification in the native Cel48S_CD protein. Conclusion: Our results confirmed that the high activity and substrate specificity of Cel48S_CD from C. thermocellum were consistent with its importance in the cellulosome. The structure of the native Cel48S_CD protein revealed evidence of conformational changes during substrate binding. In addition, our study provided a reliable method for in situ purification of cellulosomal and other secretive proteins from C. thermocellum.

-	~~Authors~~:	+	Determination of the native features of the exoglucanase Cel48S from Clostridium thermocellum.,Liu YJ, Liu S, Dong S, Li R, Feng Y, Cui Q Biotechnol Biofuels. 2018 Jan 13;11:6. doi: 10.1186/s13068-017-1009-4., eCollection 2018. PMID:29344087<ref>PMID:29344087</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5yj6" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Cui, Q]]
		+	[[Category: Dong, S]]
		+	[[Category: Feng, Y G]]
		+	[[Category: Li, R M]]
		+	[[Category: Liu, S Y]]
		+	[[Category: Liu, Y J]]
		+	[[Category: Activity]]
		+	[[Category: Cellulosome]]
		+	[[Category: Exocellulase]]
		+	[[Category: Hydrolase]]
		+	[[Category: Substrate specificity]]

OCA: Protected "5yj6" [edit=sysop:move=sysop]

OCA — Wed, 25 Oct 2017 05:36:24 GMT

Protected "5yj6" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:36, 25 October 2017

OCA: New page: '''Unreleased structure''' The entry 5yj6 is ON HOLD until Oct 09 2019 Authors: Description: Category: Unreleased Structures

OCA — Wed, 25 Oct 2017 05:36:22 GMT

New page: '''Unreleased structure''' The entry 5yj6 is ON HOLD until Oct 09 2019 Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5yj6 is ON HOLD until Oct 09 2019

Authors:

Description:
[[Category: Unreleased Structures]]