7p6i - Revision history

OCA at 13:01, 1 February 2024

OCA — Thu, 01 Feb 2024 13:01:46 GMT

←Older revision		Revision as of 13:01, 1 February 2024
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	<StructureSection load='7p6i' size='340' side='right'caption='[[7p6i]], [[Resolution\|resolution]] 1.47Å' scene=''>		<StructureSection load='7p6i' size='340' side='right'caption='[[7p6i]], [[Resolution\|resolution]] 1.47Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7p6i]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7P6I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7P6I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7p6i]] 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=7P6I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7P6I FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<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]] 1.47Å</td></tr>
-	<tr id='~~activity~~'><td class="sblockLbl"><b>~~Activity~~:</b></td><td class="sblockDat"><~~span class~~='~~plainlinks'>[https~~:~~//en.wikipedia.org/wiki/Cellulase Cellulase], with EC number [https://www.brenda~~-~~enzymes.info/php/result_flat.php4?ecno=3.~~2.1.4 3~~.2.1.4]~~ </~~span~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=7p6i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7p6i OCA], [https://pdbe.org/7p6i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7p6i RCSB], [https://www.ebi.ac.uk/pdbsum/7p6i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7p6i 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=7p6i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7p6i OCA], [https://pdbe.org/7p6i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7p6i RCSB], [https://www.ebi.ac.uk/pdbsum/7p6i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7p6i ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/C1JI15_9BACT C1JI15_9BACT]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Cellulase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Collet, L~~]]	+	[[Category: Uncultured bacterium]]
-	[[Category: ~~Dutoit, R~~]]	+	[[Category: Collet L]]
-	[[Category: ~~Gh5_5 family]]~~	+	[[Category: Dutoit R]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Transglycosylase~~]]	+

OCA at 07:18, 16 March 2022

OCA — Wed, 16 Mar 2022 07:18:59 GMT

←Older revision		Revision as of 07:18, 16 March 2022
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	==Crystal structure of the endoglucanase RBcel1 Y201F==		==Crystal structure of the endoglucanase RBcel1 Y201F==
-	<StructureSection load='7p6i' size='340' side='right'caption='[[7p6i]]' scene=''>	+	<StructureSection load='7p6i' size='340' side='right'caption='[[7p6i]], [[Resolution\|resolution]] 1.47Å' 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=7P6I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7P6I FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7p6i]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7P6I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7P6I FirstGlance]. <br>
-	</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=7p6i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7p6i OCA], [https://pdbe.org/7p6i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7p6i RCSB], [https://www.ebi.ac.uk/pdbsum/7p6i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7p6i ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/Cellulase Cellulase], with EC number [https://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'>[https://proteopedia.org/fgij/fg.htm?mol=7p6i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7p6i OCA], [https://pdbe.org/7p6i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7p6i RCSB], [https://www.ebi.ac.uk/pdbsum/7p6i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7p6i ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Transglycosylating glycoside hydrolases (GHs) offer great potential for the enzymatic synthesis of oligosaccharides. Although knowledge is progressing, there is no unique strategy to improve the transglycosylation yield. Obtaining efficient enzymatic tools for glycan synthesis with GHs remains dependent on an improved understanding of the molecular factors governing the balance between hydrolysis and transglycosylation. This enzymatic and structural study of RBcel1, a transglycosylase from the GH5_5 subfamily isolated from an uncultured bacterium, aims to unravel such factors. The size of the acceptor and donor sugars was found to be critical since transglycosylation is efficient with oligosaccharides at least the size of cellotetraose as the donor and cellotriose as the acceptor. The reaction pH is important in driving the balance between hydrolysis and transglycosylation: hydrolysis is favored at pH values below 8, while transglycosylation becomes the major reaction at basic pH. Solving the structures of two RBcel1 variants, RBcel1_E135Q and RBcel1_Y201F, in complex with ligands has brought to light some of the molecular factors behind transglycosylation. The structure of RBcel1_E135Q in complex with cellotriose allowed a +3 subsite to be defined, in accordance with the requirement for cellotriose as a transglycosylation acceptor. The structure of RBcel1_Y201F has been obtained with several transglycosylation intermediates, providing crystallographic evidence of transglycosylation. The catalytic cleft is filled with (i) donors ranging from cellotriose to cellohexaose in the negative subsites and (ii) cellobiose and cellotriose in the positive subsites. Such a structure is particularly relevant since it is the first structure of a GH5 enzyme in complex with transglycosylation products that has been obtained with neither of the catalytic glutamate residues modified.
		+
		+	Highlighting the factors governing transglycosylation in the GH5_5 endo-1,4-beta-glucanase RBcel1.,Collet L, Vander Wauven C, Oudjama Y, Galleni M, Dutoit R Acta Crystallogr D Struct Biol. 2022 Mar 1;78(Pt 3):278-289. doi:, 10.1107/S2059798321013541. Epub 2022 Feb 18. PMID:35234142<ref>PMID:35234142</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7p6i" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Cellulase]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Collet L]]	+	[[Category: Collet, L]]
-	[[Category: Dutoit R]]	+	[[Category: Dutoit, R]]
		+	[[Category: Gh5_5 family]]
		+	[[Category: Hydrolase]]
		+	[[Category: Transglycosylase]]

OCA at 06:19, 2 March 2022

OCA — Wed, 02 Mar 2022 06:19:27 GMT

←Older revision		Revision as of 06:19, 2 March 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7p6i ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of the endoglucanase RBcel1 Y201F==
-		+	<StructureSection load='7p6i' size='340' side='right'caption='[[7p6i]]' scene=''>
-	~~Authors~~: ~~Collet~~, L., ~~Dutoit~~, R.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7P6I OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7P6I FirstGlance]. <br>
-	~~Description: Crystal structure of the endoglucanase RBcel1 Y201F~~	+	</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=7p6i FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7p6i OCA], [https://pdbe.org/7p6i PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7p6i RCSB], [https://www.ebi.ac.uk/pdbsum/7p6i PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7p6i ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: Collet, L]]	+	__TOC__
-	[[Category: Dutoit, R]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Collet L]]
		+	[[Category: Dutoit R]]

OCA: Protected "7p6i" [edit=sysop:move=sysop]

OCA — Wed, 28 Jul 2021 09:29:28 GMT

Protected "7p6i" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:29, 28 July 2021

OCA: New page: '''Unreleased structure''' The entry 7p6i is ON HOLD until Paper Publication Authors: Collet, L., Dutoit, R. Description: Crystal structure of the endoglucanase RBcel1 Y201F [[Category...

OCA — Wed, 28 Jul 2021 09:29:27 GMT

New page: '''Unreleased structure''' The entry 7p6i is ON HOLD until Paper Publication Authors: Collet, L., Dutoit, R. Description: Crystal structure of the endoglucanase RBcel1 Y201F [[Category...

New page

'''Unreleased structure'''

The entry 7p6i is ON HOLD until Paper Publication

Authors: Collet, L., Dutoit, R.

Description: Crystal structure of the endoglucanase RBcel1 Y201F
[[Category: Unreleased Structures]]
[[Category: Collet, L]]
[[Category: Dutoit, R]]