4ce7 - Revision history

OCA at 11:11, 9 May 2024

2024-05-09T11:11:47Z

←Older revision		Revision as of 11:11, 9 May 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ce7]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Nonlabens_ulvanivorans Nonlabens ulvanivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CE7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CE7 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ce7]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Nonlabens_ulvanivorans Nonlabens ulvanivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CE7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CE7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</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]] 1.9Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</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=4ce7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ce7 OCA], [https://pdbe.org/4ce7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ce7 RCSB], [https://www.ebi.ac.uk/pdbsum/4ce7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ce7 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=4ce7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ce7 OCA], [https://pdbe.org/4ce7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ce7 RCSB], [https://www.ebi.ac.uk/pdbsum/4ce7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ce7 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/UH105_NONUL UH105_NONUL]] Glucuronyl hydrolase involved in ulvan degradation. Ulvan is the main polysaccharide component of the Ulvales (green seaweed) cell wall. It is composed of disaccharide building blocks comprising 3-sulfated rhamnose (Rha3S) linked to D-glucuronic acid (GlcA), L-iduronic acid (IduA), or D-xylose (Xyl). Unsaturated 3S-rhamnoglycuronyl hydrolase works together with ulvan lyases to fully degrade the ulvan polymer, catalyzing specifically the cleavage of the unsaturated 4-deoxy-L-threo-hex-4-enopyranosiduronic acid (deltaUA) of deltaUA-Rha3S disaccharides and deltaUA-Rha3S-Xyl-Rha3S tetrasaccharides, the end products of the ulvan lyase reaction. Also hydrolases deltaUA-Rha3S-IduA-Rha3S and deltaUA-Rha3S-GlcA-Rha3S tetrasaccharidestetrasaccharides. Prefers tetrasaccharides over disaccharides and prefers an uronic residue at subsite +2.<ref>PMID:24407291</ref>	+	[https://www.uniprot.org/uniprot/UH105_NONUL UH105_NONUL] Glucuronyl hydrolase involved in ulvan degradation. Ulvan is the main polysaccharide component of the Ulvales (green seaweed) cell wall. It is composed of disaccharide building blocks comprising 3-sulfated rhamnose (Rha3S) linked to D-glucuronic acid (GlcA), L-iduronic acid (IduA), or D-xylose (Xyl). Unsaturated 3S-rhamnoglycuronyl hydrolase works together with ulvan lyases to fully degrade the ulvan polymer, catalyzing specifically the cleavage of the unsaturated 4-deoxy-L-threo-hex-4-enopyranosiduronic acid (deltaUA) of deltaUA-Rha3S disaccharides and deltaUA-Rha3S-Xyl-Rha3S tetrasaccharides, the end products of the ulvan lyase reaction. Also hydrolases deltaUA-Rha3S-IduA-Rha3S and deltaUA-Rha3S-GlcA-Rha3S tetrasaccharidestetrasaccharides. Prefers tetrasaccharides over disaccharides and prefers an uronic residue at subsite +2.<ref>PMID:24407291</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ulvans are cell wall matrix polysaccharides in green algae belonging to the genus Ulva. Enzymatic degradation of the polysaccharide by ulvan lyases leads to the production of oligosaccharides with an unsaturated beta-glucuronyl residue located at the non-reducing end. Exploration of the genomic environment around the Nonlabens ulvanivorans (previously Percicivirga ulvanivorans) ulvan lyase revealed a gene highly similar to known unsaturated uronyl hydrolases classified in the CAZy glycoside hydrolase family 105. The gene was cloned, the protein was overexpressed in E. coli, and enzymology experiments demonstrated its unsaturated beta-glucuronyl activity. Kinetic analysis of purified oligo-ulvans incubated with the new enzyme showed that the full substrate specificity is attained by three subsites that preferentially bind anionic residues (sulfated rhamnose, glucuronic/iduronic acid). The 3D crystal structure of the native enzyme reveals that a trimeric organization is required for substrate binding and recognition at the +2 binding subsite. This novel unsaturated beta-glucuronyl hydrolase is part of a previously uncharacterized subgroup of GH105 members and exhibits only a very limited sequence similarity to known unsaturated alpha-glucuronyl sequences previously found only in family GH88. Clan-O formed by families GH88 and GH105 was singular in the fact that it covered families acting on both axial and equatorial glycosidic linkages, respectively. The overall comparison of active site structures between enzymes from these two families highlights how that within family GH105, and unlike for classical glycoside hydrolysis, the hydrolysis of vinyl ether groups from unsaturated saccharides occurs independently of the alpha- or beta-configuration of the cleaved linkage.
		+
		+	A novel unsaturated beta-glucuronyl hydrolase involved in ulvan degradation unveils the versatility of stereochemistry requirements in family GH105.,Nyvall-Collen P, Jeudy A, Sassi JF, Groisillier A, Czjzek M, Coutinho PM, Helbert W J Biol Chem. 2014 Jan 9. PMID:24407291<ref>PMID:24407291</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4ce7" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 17:41, 7 September 2022

2022-09-07T17:41:41Z

←Older revision		Revision as of 17:41, 7 September 2022
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	<StructureSection load='4ce7' size='340' side='right'caption='[[4ce7]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4ce7' size='340' side='right'caption='[[4ce7]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4ce7]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Cip_110082 Cip 110082~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CE7 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4CE7 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4ce7]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Nonlabens_ulvanivorans Nonlabens ulvanivorans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CE7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4CE7 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene~~></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Unsaturated_rhamnogalacturonyl_hydrolase Unsaturated rhamnogalacturonyl hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.172 3.2.1.172] </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=4ce7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ce7 OCA], [https://pdbe.org/4ce7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4ce7 RCSB], [https://www.ebi.ac.uk/pdbsum/4ce7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4ce7 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=4ce7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ce7 OCA], [~~http~~://pdbe.org/4ce7 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4ce7 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4ce7 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4ce7 ProSAT]</span></td></tr>	+
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[[https://www.uniprot.org/uniprot/UH105_NONUL UH105_NONUL]] Glucuronyl hydrolase involved in ulvan degradation. Ulvan is the main polysaccharide component of the Ulvales (green seaweed) cell wall. It is composed of disaccharide building blocks comprising 3-sulfated rhamnose (Rha3S) linked to D-glucuronic acid (GlcA), L-iduronic acid (IduA), or D-xylose (Xyl). Unsaturated 3S-rhamnoglycuronyl hydrolase works together with ulvan lyases to fully degrade the ulvan polymer, catalyzing specifically the cleavage of the unsaturated 4-deoxy-L-threo-hex-4-enopyranosiduronic acid (deltaUA) of deltaUA-Rha3S disaccharides and deltaUA-Rha3S-Xyl-Rha3S tetrasaccharides, the end products of the ulvan lyase reaction. Also hydrolases deltaUA-Rha3S-IduA-Rha3S and deltaUA-Rha3S-GlcA-Rha3S tetrasaccharidestetrasaccharides. Prefers tetrasaccharides over disaccharides and prefers an uronic residue at subsite +2.<ref>PMID:24407291</ref>
-	~~Ulvans are cell wall matrix polysaccharides~~ in ~~green algae belonging to the genus Ulva~~. ~~Enzymatic degradation of~~ the polysaccharide ~~by ulvan lyases leads to the production~~ of ~~oligosaccharides with an unsaturated beta-glucuronyl residue located at~~ the ~~non-reducing end~~. ~~Exploration~~ of ~~the genomic environment around the Nonlabens ulvanivorans~~ (~~previously Percicivirga ulvanivorans~~) ~~ulvan lyase revealed a gene highly similar~~ to ~~known unsaturated uronyl hydrolases classified in the CAZy glycoside hydrolase family 105. The gene was cloned~~, ~~the protein was overexpressed in E. coli~~, ~~and enzymology experiments demonstrated its unsaturated beta~~-~~glucuronyl activity~~. ~~Kinetic analysis of purified oligo~~-~~ulvans incubated~~ with the ~~new enzyme showed that~~ the ~~full substrate specificity is attained by three subsites that preferentially bind anionic residues (sulfated rhamnose, glucuronic/iduronic acid). The 3D crystal structure~~ of the ~~native enzyme reveals that a trimeric organization is required for substrate binding and recognition at the +2 binding subsite. This novel~~ unsaturated ~~beta~~-~~glucuronyl hydrolase is part~~ of ~~a previously uncharacterized subgroup of GH105 members~~ and ~~exhibits only a very limited sequence similarity to known unsaturated alpha~~-~~glucuronyl sequences previously found only in family GH88. Clan~~-O formed by families GH88 and GH105 was singular in the fact that it covered families acting on both axial and equatorial glycosidic linkages, respectively. The overall comparison of active site structures between enzymes from these two families highlights how that within family GH105, and unlike for classical glycoside hydrolysis, the ~~hydrolysis of vinyl ether groups from unsaturated saccharides occurs independently~~ of the ~~alpha~~- ~~or beta~~-~~configuration of the cleaved linkage.~~	+
-		+
-	~~A novel unsaturated beta~~-~~glucuronyl hydrolase involved in ulvan degradation unveils the versatility of stereochemistry requirements in family GH105.,Nyvall~~-~~Collen P, Jeudy A, Sassi JF, Groisillier A, Czjzek M, Coutinho PM, Helbert W J Biol Chem~~. ~~2014 Jan 9~~. ~~PMID:24407291~~<ref>PMID:24407291</ref>	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~<div class="pdbe-citations 4ce7" style="background-color:#fffaf0;"></div~~>	+
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Cip 110082]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Unsaturated rhamnogalacturonyl hydrolase]]~~	+	[[Category: Nonlabens ulvanivorans]]
-	~~[[Category: Collen, P Nyvall~~]]	+	[[Category: Coutinho PM]]
-	[[Category: Coutinho~~, P M~~]]	+	[[Category: Czjzek M]]
-	[[Category: Czjzek, M]]	+	[[Category: Groisillier A]]
-	[[Category: Groisillier, A]]	+	[[Category: Helbert W]]
-	[[Category: Helbert, W]]	+	[[Category: Jeudy A]]
-	[[Category: Jeudy, A]]	+	[[Category: Nyvall Collen P]]
-	[[Category: ~~Exo-enzyme]]~~	+
-	~~[[Category: Family gh105]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Marine polysaccharide]]~~	+
-	~~[[Category: Ulvan degradation~~]]	+

OCA at 16:26, 28 August 2019

2019-08-28T16:26:07Z

←Older revision		Revision as of 16:26, 28 August 2019
Line 1:		Line 1:

	==Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to family GH105, involved in ulvan degradation==		==Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to family GH105, involved in ulvan degradation==
-	<StructureSection load='4ce7' size='340' side='right' caption='[[4ce7]], [[Resolution\|resolution]] 1.90Å' scene=''>	+	<StructureSection load='4ce7' size='340' side='right'caption='[[4ce7]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4ce7]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Cip_110082 Cip 110082]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CE7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CE7 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4ce7]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Cip_110082 Cip 110082]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CE7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CE7 FirstGlance]. <br>
Line 22:		Line 22:
	</StructureSection>		</StructureSection>
	[[Category: Cip 110082]]		[[Category: Cip 110082]]
		+	[[Category: Large Structures]]
	[[Category: Unsaturated rhamnogalacturonyl hydrolase]]		[[Category: Unsaturated rhamnogalacturonyl hydrolase]]
	[[Category: Collen, P Nyvall]]		[[Category: Collen, P Nyvall]]

OCA at 22:59, 4 August 2016

2016-08-04T22:59:01Z

←Older revision		Revision as of 22:59, 4 August 2016
Line 1:		Line 1:
		+
	==Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to family GH105, involved in ulvan degradation==		==Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to family GH105, involved in ulvan degradation==
	<StructureSection load='4ce7' size='340' side='right' caption='[[4ce7]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='4ce7' size='340' side='right' caption='[[4ce7]], [[Resolution\|resolution]] 1.90Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Unsaturated_rhamnogalacturonyl_hydrolase Unsaturated rhamnogalacturonyl hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.172 3.2.1.172] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Unsaturated_rhamnogalacturonyl_hydrolase Unsaturated rhamnogalacturonyl hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.172 3.2.1.172] </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=4ce7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ce7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ce7 RCSB], [http://www.ebi.ac.uk/pdbsum/4ce7 PDBsum]</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=4ce7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ce7 OCA], [http://pdbe.org/4ce7 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4ce7 RCSB], [http://www.ebi.ac.uk/pdbsum/4ce7 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4ce7 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4ce7" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 18:03, 21 December 2014

2014-12-21T18:03:34Z

←Older revision		Revision as of 18:03, 21 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4ce7\| PDB=4ce7 \| SCENE= }}~~	+	==Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to family GH105, involved in ulvan degradation==
-	===Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to family GH105, involved in ulvan degradation===	+	<StructureSection load='4ce7' size='340' side='right' caption='[[4ce7]], [[Resolution\|resolution]] 1.90Å' scene=''>
-	~~{{ABSTRACT_PUBMED_24407291}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4ce7]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Cip_110082 Cip 110082]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CE7 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4CE7 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Unsaturated_rhamnogalacturonyl_hydrolase Unsaturated rhamnogalacturonyl hydrolase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.2.1.172 3.2.1.172] </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=4ce7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4ce7 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4ce7 RCSB], [http://www.ebi.ac.uk/pdbsum/4ce7 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Ulvans are cell wall matrix polysaccharides in green algae belonging to the genus Ulva. Enzymatic degradation of the polysaccharide by ulvan lyases leads to the production of oligosaccharides with an unsaturated beta-glucuronyl residue located at the non-reducing end. Exploration of the genomic environment around the Nonlabens ulvanivorans (previously Percicivirga ulvanivorans) ulvan lyase revealed a gene highly similar to known unsaturated uronyl hydrolases classified in the CAZy glycoside hydrolase family 105. The gene was cloned, the protein was overexpressed in E. coli, and enzymology experiments demonstrated its unsaturated beta-glucuronyl activity. Kinetic analysis of purified oligo-ulvans incubated with the new enzyme showed that the full substrate specificity is attained by three subsites that preferentially bind anionic residues (sulfated rhamnose, glucuronic/iduronic acid). The 3D crystal structure of the native enzyme reveals that a trimeric organization is required for substrate binding and recognition at the +2 binding subsite. This novel unsaturated beta-glucuronyl hydrolase is part of a previously uncharacterized subgroup of GH105 members and exhibits only a very limited sequence similarity to known unsaturated alpha-glucuronyl sequences previously found only in family GH88. Clan-O formed by families GH88 and GH105 was singular in the fact that it covered families acting on both axial and equatorial glycosidic linkages, respectively. The overall comparison of active site structures between enzymes from these two families highlights how that within family GH105, and unlike for classical glycoside hydrolysis, the hydrolysis of vinyl ether groups from unsaturated saccharides occurs independently of the alpha- or beta-configuration of the cleaved linkage.

-	~~==About this Structure==~~	+	A novel unsaturated beta-glucuronyl hydrolase involved in ulvan degradation unveils the versatility of stereochemistry requirements in family GH105.,Nyvall-Collen P, Jeudy A, Sassi JF, Groisillier A, Czjzek M, Coutinho PM, Helbert W J Biol Chem. 2014 Jan 9. PMID:24407291<ref>PMID:24407291</ref>
-	~~[[4ce7]] is a 3 chain structure~~. ~~Full crystallographic information is available from [http://oca~~.~~weizmann~~.~~ac.il~~/~~oca-bin/ocashort?id=4CE7 OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~<ref group="xtra">PMID:024407291</ref>~~<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Cip 110082]]
	[[Category: Unsaturated rhamnogalacturonyl hydrolase]]		[[Category: Unsaturated rhamnogalacturonyl hydrolase]]
-	[[Category: Collen, P Nyvall.]]	+	[[Category: Collen, P Nyvall]]
-	[[Category: Coutinho, P M.]]	+	[[Category: Coutinho, P M]]
-	[[Category: Czjzek, M.]]	+	[[Category: Czjzek, M]]
-	[[Category: Groisillier, A.]]	+	[[Category: Groisillier, A]]
-	[[Category: Helbert, W.]]	+	[[Category: Helbert, W]]
-	[[Category: Jeudy, A.]]	+	[[Category: Jeudy, A]]
	[[Category: Exo-enzyme]]		[[Category: Exo-enzyme]]
	[[Category: Family gh105]]		[[Category: Family gh105]]

OCA at 06:54, 22 January 2014

2014-01-22T06:54:28Z

←Older revision		Revision as of 06:54, 22 January 2014
Line 1:		Line 1:
-	~~'''Unreleased~~ structure~~'''~~	+	{{STRUCTURE_4ce7\| PDB=4ce7 \| SCENE= }}
		+	===Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to family GH105, involved in ulvan degradation===
		+	{{ABSTRACT_PUBMED_24407291}}

-	~~The entry~~ 4ce7 is ~~ON HOLD until Paper Publication~~	+	==About this Structure==
		+	[[4ce7]] is a 3 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4CE7 OCA].

-	~~Authors~~: ~~Nyvall~~ Collen, P.~~, Jeudy, A., Groisillier, A.,~~ Coutinho, P.M., Helbert, W., ~~Czjzek, M~~.	+	==Reference==
-		+	<ref group="xtra">PMID:024407291</ref><references group="xtra"/><references/>
-	~~Description~~: ~~Crystal structure of a novel unsaturated beta~~-~~glucuronyl hydrolase~~ enzyme~~, belonging to family GH105, involved in ulvan~~ degradation	+	[[Category: Unsaturated rhamnogalacturonyl hydrolase]]
		+	[[Category: Collen, P Nyvall.]]
		+	[[Category: Coutinho, P M.]]
		+	[[Category: Czjzek, M.]]
		+	[[Category: Groisillier, A.]]
		+	[[Category: Helbert, W.]]
		+	[[Category: Jeudy, A.]]
		+	[[Category: Exo-enzyme]]
		+	[[Category: Family gh105]]
		+	[[Category: Hydrolase]]
		+	[[Category: Marine polysaccharide]]
		+	[[Category: Ulvan degradation]]

OCA: Protected "4ce7" [edit=sysop:move=sysop]

2013-11-20T12:37:30Z

Protected "4ce7" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:37, 20 November 2013

OCA: New page: '''Unreleased structure''' The entry 4ce7 is ON HOLD until Paper Publication Authors: Nyvall Collen, P., Jeudy, A., Groisillier, A., Coutinho, P.M., Helbert, W., Czjzek, M. Description...

2013-11-20T12:37:29Z

New page: '''Unreleased structure''' The entry 4ce7 is ON HOLD until Paper Publication Authors: Nyvall Collen, P., Jeudy, A., Groisillier, A., Coutinho, P.M., Helbert, W., Czjzek, M. Description...

New page

'''Unreleased structure'''

The entry 4ce7 is ON HOLD until Paper Publication

Authors: Nyvall Collen, P., Jeudy, A., Groisillier, A., Coutinho, P.M., Helbert, W., Czjzek, M.

Description: Crystal structure of a novel unsaturated beta-glucuronyl hydrolase enzyme, belonging to family GH105, involved in ulvan degradation