OCA at 12:50, 24 January 2024

OCA — Wed, 24 Jan 2024 12:50:41 GMT

←Older revision		Revision as of 12:50, 24 January 2024
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	<StructureSection load='6syu' size='340' side='right'caption='[[6syu]], [[Resolution\|resolution]] 1.33Å' scene=''>		<StructureSection load='6syu' size='340' side='right'caption='[[6syu]], [[Resolution\|resolution]] 1.33Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6syu]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SYU OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6SYU FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6syu]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Opitutus_terrae Opitutus terrae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SYU OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6SYU FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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]] 1.33Å</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=6syu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6syu OCA], [~~http~~://pdbe.org/6syu PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6syu RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6syu PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6syu ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=PRD_900116:4beta-beta-xylobiose'>PRD_900116</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</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=6syu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6syu OCA], [https://pdbe.org/6syu PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6syu RCSB], [https://www.ebi.ac.uk/pdbsum/6syu PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6syu ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/B1ZMF4_OPITP B1ZMF4_OPITP]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Glucuronoyl esterases (GEs) catalyze the cleavage of ester linkages between lignin and glucuronic acid moieties on glucuronoxylan in plant biomass. As such, GEs represent promising biochemical tools in industrial processing of these recalcitrant resources. However, details on how GEs interact and catalyze degradation of their natural substrates are sparse, calling for thorough enzyme structure-function studies. Presented here is a structural and mechanistic investigation of the bacterial GE OtCE15A. GEs belong to the carbohydrate esterase family 15 (CE15), which is in turn part of the larger alpha/beta-hydrolase superfamily. GEs contain a Ser-His-Asp/Glu catalytic triad, but the location of the catalytic acid in GEs has been shown to be variable, and OtCE15A possesses two putative catalytic acidic residues in the active site. Through site-directed mutagenesis, we demonstrate that these residues are functionally redundant, possibly indicating the evolutionary route toward new functionalities within the family. Structures determined with glucuronate, in both native and covalently bound intermediate states, and galacturonate provide insights into the catalytic mechanism of CE15. A structure of OtCE15A with the glucuronoxylooligosaccharide 2(3)-(4-O-methyl-alpha-d-glucuronyl)-xylotriose (commonly referred to as XUX) shows that the enzyme can indeed interact with polysaccharides from the plant cell wall, and an additional structure with the disaccharide xylobiose revealed a surface binding site that could possibly indicate a recognition mechanism for long glucuronoxylan chains. Collectively, the results indicate that OtCE15A, and likely most of the CE15 family, can utilize esters of glucuronoxylooligosaccharides and support the proposal that these enzymes work on lignin-carbohydrate complexes in plant biomass.
		+
		+	Structural and biochemical studies of the glucuronoyl esterase OtCE15A illuminate its interaction with lignocellulosic components.,Mazurkewich S, Poulsen JN, Lo Leggio L, Larsbrink J J Biol Chem. 2019 Dec 27;294(52):19978-19987. doi: 10.1074/jbc.RA119.011435. Epub , 2019 Nov 18. PMID:31740581<ref>PMID:31740581</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6syu" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Larsbrink, J~~]]	+	[[Category: Opitutus terrae]]
-	[[Category: ~~Leggio, L Lo]]~~	+	[[Category: Larsbrink J]]
-	~~[[Category: Mazurkewich, S]]~~	+	[[Category: Lo Leggio L]]
-	~~[[Category: Poulsen,~~ J ~~C.Navarro~~]]	+	[[Category: Mazurkewich S]]
-	[[Category: ~~Biomass~~]]	+	[[Category: Navarro Poulsen JC]]
-	[[Category: ~~Complex~~]]	+
-	[[Category: ~~Esterase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 06:59, 27 November 2019

OCA — Wed, 27 Nov 2019 06:59:10 GMT

←Older revision		Revision as of 06:59, 27 November 2019
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-	'''Unreleased structure'''

-	The ~~entry~~ 6syu ~~is ON HOLD~~	+	==The wild type glucuronoyl esterase OtCE15A from Opitutus terrae in complex with xylobiose==
-		+	<StructureSection load='6syu' size='340' side='right'caption='[[6syu]], [[Resolution\|resolution]] 1.33Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6syu]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6SYU OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6SYU FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=XYP:BETA-D-XYLOPYRANOSE'>XYP</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<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=6syu FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6syu OCA], [http://pdbe.org/6syu PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6syu RCSB], [http://www.ebi.ac.uk/pdbsum/6syu PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6syu ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Larsbrink, J]]
		+	[[Category: Leggio, L Lo]]
		+	[[Category: Mazurkewich, S]]
		+	[[Category: Poulsen, J C.Navarro]]
		+	[[Category: Biomass]]
		+	[[Category: Complex]]
		+	[[Category: Esterase]]
		+	[[Category: Hydrolase]]

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

OCA — Thu, 10 Oct 2019 03:43:49 GMT

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

←Older revision

Revision as of 03:43, 10 October 2019

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

OCA — Thu, 10 Oct 2019 03:43:48 GMT

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

New page

'''Unreleased structure'''

The entry 6syu is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

6syu - Revision history

OCA at 12:50, 24 January 2024

OCA at 06:59, 27 November 2019

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

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