5kle - Revision history

OCA at 10:03, 27 September 2023

2023-09-27T10:03:09Z

←Older revision		Revision as of 10:03, 27 September 2023
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	<StructureSection load='5kle' size='340' side='right'caption='[[5kle]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='5kle' size='340' side='right'caption='[[5kle]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kle]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Uncultivated_bacterium Uncultivated~~ bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLE OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KLE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kle]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Uncultured_bacterium Uncultured bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KLE FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=CE5:CELLOPENTAOSE'>CE5</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]] 1.5Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5klc\|5klc]]~~, ~~[[5klf\|5klf]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BGC:BETA-D-GLUCOSE'>BGC</scene>, <scene name='pdbligand=PRD_900016:beta-cellopentaose'>PRD_900016</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=5kle FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kle OCA], [~~http~~://pdbe.org/5kle PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kle RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kle PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kle 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=5kle FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kle OCA], [https://pdbe.org/5kle PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kle RCSB], [https://www.ebi.ac.uk/pdbsum/5kle PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kle ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0R5P8X1_9BACT A0A0R5P8X1_9BACT]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Uncultivated~~ bacterium]]	+	[[Category: Uncultured bacterium]]
-	[[Category: Campos~~, B M~~]]	+	[[Category: Campos BM]]
-	[[Category: Liberato~~, M V~~]]	+	[[Category: Liberato MV]]
-	[[Category: Squina~~, F M~~]]	+	[[Category: Squina FM]]
-	[[Category: Zeri~~, A C.M]]~~	+	[[Category: Zeri ACM]]
-	~~[[Category: Biofuel]]~~	+
-	~~[[Category: Carbohydrate-binding protein]]~~	+
-	~~[[Category: Cellulose]]~~	+
-	~~[[Category: Metagenomic]]~~	+
-	~~[[Category: Sugar binding protein~~]]	+

OCA at 06:24, 17 April 2019

2019-04-17T06:24:26Z

←Older revision		Revision as of 06:24, 17 April 2019
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	==Structure of CBM_E1, a novel carbohydrate-binding module found by sugar cane soil metagenome, complexed with cellopentaose==		==Structure of CBM_E1, a novel carbohydrate-binding module found by sugar cane soil metagenome, complexed with cellopentaose==
-	<StructureSection load='5kle' size='340' side='right' caption='[[5kle]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='5kle' size='340' side='right'caption='[[5kle]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5kle]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Uncultivated_bacterium Uncultivated bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KLE FirstGlance]. <br>		<table><tr><td colspan='2'>[[5kle]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Uncultivated_bacterium Uncultivated bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KLE FirstGlance]. <br>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Uncultivated bacterium]]		[[Category: Uncultivated bacterium]]
	[[Category: Campos, B M]]		[[Category: Campos, B M]]

OCA at 08:08, 17 January 2018

2018-01-17T08:08:25Z

←Older revision		Revision as of 08:08, 17 January 2018
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	<StructureSection load='5kle' size='340' side='right' caption='[[5kle]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='5kle' size='340' side='right' caption='[[5kle]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kle]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KLE FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kle]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Uncultivated_bacterium Uncultivated bacterium]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KLE FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CE5:CELLOPENTAOSE'>CE5</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CE5:CELLOPENTAOSE'>CE5</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5klc\|5klc]], [[5klf\|5klf]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5klc\|5klc]], [[5klf\|5klf]]</td></tr>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Uncultivated bacterium]]
	[[Category: Campos, B M]]		[[Category: Campos, B M]]
	[[Category: Liberato, M V]]		[[Category: Liberato, M V]]

OCA at 13:55, 21 September 2016

2016-09-21T13:55:52Z

←Older revision		Revision as of 13:55, 21 September 2016
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-	'''Unreleased structure'''

-	~~The entry~~ 5kle is ~~ON HOLD until Paper~~ Publication	+	==Structure of CBM_E1, a novel carbohydrate-binding module found by sugar cane soil metagenome, complexed with cellopentaose==
		+	<StructureSection load='5kle' size='340' side='right' caption='[[5kle]], [[Resolution\|resolution]] 1.50Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5kle]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KLE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KLE FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CE5:CELLOPENTAOSE'>CE5</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5klc\|5klc]], [[5klf\|5klf]]</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=5kle FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kle OCA], [http://pdbe.org/5kle PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kle RCSB], [http://www.ebi.ac.uk/pdbsum/5kle PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kle ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Carbohydrate-binding modules (CBMs) are appended to glycoside hydrolases and can contribute to the degradation of complex recalcitrant substrates such as the plant cell wall. For application in bioethanol production, novel enzymes with high catalytic activity against recalcitrant lignocellulosic material are being explored and developed. In this work, we report the functional and structural study of CBM_E1, discovered through a metagenomics approach, which is the founding member of a novel CBM family, CBMxx. CBM_E1, which is linked to an endoglucanase, displayed affinity for mixed linked beta-1,4-beta-1,3-glucans, xyloglucan, avicel and cellooligosaccharides. The crystal structure of CBM_E1 in complex with cellopentaose displayed a canonical beta-sandwich fold comprising two beta sheets. The planar ligand binding site, observed in a parallel orientation with the beta strands, is a typical feature of Type A CBMs. On the other hand, affinity for bacterial crystalline cellulose was not detected, a ligand recognized by Type A CBMs, while binding to soluble glucans was enthalpically driven, typical of Type B modules. These unique properties of CBM_E1 are at the interface between Type A and Type B CBMs.

-	~~Authors: Liberato, M.V~~., Campos, ~~B.M.~~, Zeri, A.C.M.~~, Squina, F~~.M.	+	A novel carbohydrate-binding module from sugar cane soil metagenome featuring unique structural and carbohydrate affinity properties.,Campos BM, Liberato MV, Alvarez TM, Zanphorlin LM, Ematsu GC, Barud H, Polikarpov I, Ruller R, Gilbert HJ, Zeri AC, Squina FM J Biol Chem. 2016 Sep 12. pii: jbc.M116.744383. PMID:27621314<ref>PMID:27621314</ref>

-	~~Description: Structure of CBM_E1~~, a ~~novel carbohydrate~~-~~binding module found by sugar cane soil metagenome~~, ~~complexed with cellopentaose~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: Squina, F.M]]	+	<div class="pdbe-citations 5kle" style="background-color:#fffaf0;"></div>
-	[[Category: Zeri, A.C.M]]	+	== References ==
-	[[Category: ~~Campos, B.M~~]]	+	<references/>
-	[[Category: ~~Liberato, M.V~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Campos, B M]]
		+	[[Category: Liberato, M V]]
		+	[[Category: Squina, F M]]
		+	[[Category: Zeri, A C.M]]
		+	[[Category: Biofuel]]
		+	[[Category: Carbohydrate-binding protein]]
		+	[[Category: Cellulose]]
		+	[[Category: Metagenomic]]
		+	[[Category: Sugar binding protein]]

OCA at 01:48, 4 August 2016

2016-08-04T01:48:26Z

←Older revision		Revision as of 01:48, 4 August 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Liberato, M.V., Campos, B.M., Zeri, A.C.M., Squina, F.M.		Authors: Liberato, M.V., Campos, B.M., Zeri, A.C.M., Squina, F.M.

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

2016-07-13T00:31:19Z

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

←Older revision

Revision as of 00:31, 13 July 2016

OCA: New page: '''Unreleased structure''' The entry 5kle is ON HOLD Authors: Liberato, M.V., Campos, B.M., Zeri, A.C.M., Squina, F.M. Description: Structure of CBM_E1, a novel carbohydrate-binding mo...

2016-07-13T00:31:17Z

New page: '''Unreleased structure''' The entry 5kle is ON HOLD Authors: Liberato, M.V., Campos, B.M., Zeri, A.C.M., Squina, F.M. Description: Structure of CBM_E1, a novel carbohydrate-binding mo...

New page

'''Unreleased structure'''

The entry 5kle is ON HOLD

Authors: Liberato, M.V., Campos, B.M., Zeri, A.C.M., Squina, F.M.

Description: Structure of CBM_E1, a novel carbohydrate-binding module found by sugar cane soil metagenome, complexed with cellopentaose
[[Category: Unreleased Structures]]
[[Category: Squina, F.M]]
[[Category: Zeri, A.C.M]]
[[Category: Campos, B.M]]
[[Category: Liberato, M.V]]