5ta5 - Revision history

OCA at 15:38, 6 March 2024

OCA — Wed, 06 Mar 2024 15:38:36 GMT

←Older revision		Revision as of 15:38, 6 March 2024
Line 3:		Line 3:
	<StructureSection load='5ta5' size='340' side='right'caption='[[5ta5]], [[Resolution\|resolution]] 1.65Å' scene=''>		<StructureSection load='5ta5' size='340' side='right'caption='[[5ta5]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ta5]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Atcc_8492 Atcc 8492~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TA5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5TA5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ta5]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacteroides_uniformis Bacteroides uniformis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TA5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5TA5 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AAL:3,6-ANHYDRO-L-GALACTOSE'>AAL</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.65Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5t98\|5t98]], [[5t99\|5t99]], [[5t9a\|5t9a]], [[5t9g\|5t9g]], [[5t9x\|5t9x]], [[5ta0\|5ta0]], [[5ta1\|5ta1]], [[5ta7\|5ta7]], [[5ta9\|5ta9]]</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AAL:3,6-ANHYDRO-L-GALACTOSE'>AAL</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=5ta5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ta5 OCA], [~~http~~://pdbe.org/5ta5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5ta5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5ta5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5ta5 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=5ta5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ta5 OCA], [https://pdbe.org/5ta5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5ta5 RCSB], [https://www.ebi.ac.uk/pdbsum/5ta5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5ta5 ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/A0A2D0TCD3_BACUN A0A2D0TCD3_BACUN]
-	In red algae, the most abundant principal cell wall polysaccharides are mixed galactan agars, of which agarose is a common component. While bioconversion of agarose is predominantly catalyzed by bacteria that live in the oceans, agarases have been discovered in microorganisms that inhabit diverse terrestrial ecosystems, including human intestines. Here we comprehensively define the structure-function relationship of the agarolytic pathway from the human intestinal bacterium Bacteroides uniformis (Bu) NP1. Using recombinant agarases from Bu NP1 to completely depolymerize agarose, we demonstrate that a non-agarolytic Bu strain can grow on GAL released from agarose. This relationship underscores that rare nutrient utilization by intestinal bacteria is facilitated by the acquisition of highly specific enzymes that unlock inaccessible carbohydrate resources contained within unusual polysaccharides. Intriguingly, the agarolytic pathway is differentially distributed throughout geographically distinct human microbiomes, reflecting a complex historical context for agarose consumption by human beings.	+
-		+
-	Molecular basis of an agarose metabolic pathway acquired by a human intestinal symbiont.,Pluvinage B, Grondin JM, Amundsen C, Klassen L, Moote PE, Xiao Y, Thomas D, Pudlo NA, Anele A, Martens EC, Inglis GD, Uwiera RER, Boraston AB, Abbott DW Nat Commun. 2018 Mar 13;9(1):~~1043. doi: 10.1038~~/~~s41467-018-03366-x. PMID:29535379<ref>PMID:29535379<~~/~~ref>~~	+
-		+
-	~~From MEDLINE®/PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 5ta5" style="background-color:#fffaf0;"></div>~~	+
-	~~== References ==~~	+
-	~~<references~~/>	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Atcc 8492~~]]	+	[[Category: Bacteroides uniformis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Boraston~~, A B~~]]	+	[[Category: Boraston AB]]
-	[[Category: Pluvinage, B]]	+	[[Category: Pluvinage B]]
-	~~[[Category: Glycoside hydrolase]]~~	+
-	~~[[Category: Hydrolase~~]]	+

OCA at 06:54, 27 March 2019

OCA — Wed, 27 Mar 2019 06:54:49 GMT

←Older revision		Revision as of 06:54, 27 March 2019
Line 1:		Line 1:

	==Crystal structure of BuGH86wt in complex with neoagarooctaose==		==Crystal structure of BuGH86wt in complex with neoagarooctaose==
-	<StructureSection load='5ta5' size='340' side='right' caption='[[5ta5]], [[Resolution\|resolution]] 1.65Å' scene=''>	+	<StructureSection load='5ta5' size='340' side='right'caption='[[5ta5]], [[Resolution\|resolution]] 1.65Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5ta5]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TA5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TA5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5ta5]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_8492 Atcc 8492]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TA5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TA5 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AAL:3,6-ANHYDRO-L-GALACTOSE'>AAL</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AAL:3,6-ANHYDRO-L-GALACTOSE'>AAL</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5t98\|5t98]], [[5t99\|5t99]], [[5t9a\|5t9a]], [[5t9g\|5t9g]], [[5t9x\|5t9x]], [[5ta0\|5ta0]], [[5ta1\|5ta1]], [[5ta7\|5ta7]], [[5ta9\|5ta9]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5t98\|5t98]], [[5t99\|5t99]], [[5t9a\|5t9a]], [[5t9g\|5t9g]], [[5t9x\|5t9x]], [[5ta0\|5ta0]], [[5ta1\|5ta1]], [[5ta7\|5ta7]], [[5ta9\|5ta9]]</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=5ta5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ta5 OCA], [http://pdbe.org/5ta5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ta5 RCSB], [http://www.ebi.ac.uk/pdbsum/5ta5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ta5 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=5ta5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ta5 OCA], [http://pdbe.org/5ta5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ta5 RCSB], [http://www.ebi.ac.uk/pdbsum/5ta5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ta5 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In red algae, the most abundant principal cell wall polysaccharides are mixed galactan agars, of which agarose is a common component. While bioconversion of agarose is predominantly catalyzed by bacteria that live in the oceans, agarases have been discovered in microorganisms that inhabit diverse terrestrial ecosystems, including human intestines. Here we comprehensively define the structure-function relationship of the agarolytic pathway from the human intestinal bacterium Bacteroides uniformis (Bu) NP1. Using recombinant agarases from Bu NP1 to completely depolymerize agarose, we demonstrate that a non-agarolytic Bu strain can grow on GAL released from agarose. This relationship underscores that rare nutrient utilization by intestinal bacteria is facilitated by the acquisition of highly specific enzymes that unlock inaccessible carbohydrate resources contained within unusual polysaccharides. Intriguingly, the agarolytic pathway is differentially distributed throughout geographically distinct human microbiomes, reflecting a complex historical context for agarose consumption by human beings.
		+
		+	Molecular basis of an agarose metabolic pathway acquired by a human intestinal symbiont.,Pluvinage B, Grondin JM, Amundsen C, Klassen L, Moote PE, Xiao Y, Thomas D, Pudlo NA, Anele A, Martens EC, Inglis GD, Uwiera RER, Boraston AB, Abbott DW Nat Commun. 2018 Mar 13;9(1):1043. doi: 10.1038/s41467-018-03366-x. PMID:29535379<ref>PMID:29535379</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5ta5" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 8492]]
		+	[[Category: Large Structures]]
	[[Category: Boraston, A B]]		[[Category: Boraston, A B]]
	[[Category: Pluvinage, B]]		[[Category: Pluvinage, B]]
	[[Category: Glycoside hydrolase]]		[[Category: Glycoside hydrolase]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]

OCA at 05:29, 6 October 2017

OCA — Fri, 06 Oct 2017 05:29:07 GMT

←Older revision		Revision as of 05:29, 6 October 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5ta5 ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of BuGH86wt in complex with neoagarooctaose==
-		+	<StructureSection load='5ta5' size='340' side='right' caption='[[5ta5]], [[Resolution\|resolution]] 1.65Å' scene=''>
-	~~Authors~~: ~~Pluvinage, B~~.~~, Boraston, A~~.B.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5ta5]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TA5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TA5 FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of BuGH86wt in complex with neoagarooctaose~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=AAL:3,6-ANHYDRO-L-GALACTOSE'>AAL</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=GAL:BETA-D-GALACTOSE'>GAL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5t98\|5t98]], [[5t99\|5t99]], [[5t9a\|5t9a]], [[5t9g\|5t9g]], [[5t9x\|5t9x]], [[5ta0\|5ta0]], [[5ta1\|5ta1]], [[5ta7\|5ta7]], [[5ta9\|5ta9]]</td></tr>
-	[[Category: Boraston, A.B]]	+	<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=5ta5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5ta5 OCA], [http://pdbe.org/5ta5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5ta5 RCSB], [http://www.ebi.ac.uk/pdbsum/5ta5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5ta5 ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Boraston, A B]]
	[[Category: Pluvinage, B]]		[[Category: Pluvinage, B]]
		+	[[Category: Glycoside hydrolase]]
		+	[[Category: Hydrolase]]

OCA at 16:51, 26 October 2016

OCA — Wed, 26 Oct 2016 16:51:57 GMT

←Older revision		Revision as of 16:51, 26 October 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5ta5 is ON HOLD	+	The entry 5ta5 is ON HOLD until Paper Publication

	Authors: Pluvinage, B., Boraston, A.B.		Authors: Pluvinage, B., Boraston, A.B.

OCA: Protected "5ta5" [edit=sysop:move=sysop]

OCA — Wed, 21 Sep 2016 12:24:53 GMT

Protected "5ta5" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:24, 21 September 2016

OCA: New page: '''Unreleased structure''' The entry 5ta5 is ON HOLD Authors: Pluvinage, B., Boraston, A.B. Description: Crystal structure of BuGH86wt in complex with neoagarooctaose [[Category: Unrel...

OCA — Wed, 21 Sep 2016 12:24:52 GMT

New page: '''Unreleased structure''' The entry 5ta5 is ON HOLD Authors: Pluvinage, B., Boraston, A.B. Description: Crystal structure of BuGH86wt in complex with neoagarooctaose [[Category: Unrel...

New page

'''Unreleased structure'''

The entry 5ta5 is ON HOLD

Authors: Pluvinage, B., Boraston, A.B.

Description: Crystal structure of BuGH86wt in complex with neoagarooctaose
[[Category: Unreleased Structures]]
[[Category: Boraston, A.B]]
[[Category: Pluvinage, B]]