5jsx - Revision history

OCA at 19:04, 20 September 2023

2023-09-20T19:04:59Z

←Older revision		Revision as of 19:04, 20 September 2023
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	==Crystal structure of glucosyl-3-phosphoglycerate synthase from Mycobacterium tuberculosis in complex with Mn2+ and uridine-diphosphate-glucose (UDP-Glc)==		==Crystal structure of glucosyl-3-phosphoglycerate synthase from Mycobacterium tuberculosis in complex with Mn2+ and uridine-diphosphate-glucose (UDP-Glc)==
-	<StructureSection load='5jsx' size='340' side='right' caption='[[5jsx]], [[Resolution\|resolution]] 2.81Å' scene=''>	+	<StructureSection load='5jsx' size='340' side='right'caption='[[5jsx]], [[Resolution\|resolution]] 2.81Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jsx]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Mycta Mycta~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JSX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5JSX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jsx]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Mycobacterium_tuberculosis_H37Ra Mycobacterium tuberculosis H37Ra]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JSX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5JSX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=GOL:GLYCEROL'>GOL</scene~~>, ~~<scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UPG:URIDINE-5-DIPHOSPHATE-GLUCOSE'>UPG</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]] 2.81Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5jqx\|5jqx]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UPG:URIDINE-5-DIPHOSPHATE-GLUCOSE'>UPG</scene></td></tr>
-	<~~tr id~~='~~gene~~'><~~td class="sblockLbl"~~><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">MRA_1217 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=419947 MYCTA])~~</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=5jsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jsx OCA], [https://pdbe.org/5jsx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5jsx RCSB], [https://www.ebi.ac.uk/pdbsum/5jsx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5jsx 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=5jsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jsx OCA], [~~http~~://pdbe.org/5jsx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5jsx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5jsx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5jsx ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A5U1Q6_MYCTA A5U1Q6_MYCTA]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Mycta~~]]	+	[[Category: Large Structures]]
-	[[Category: Albesa-Jove, D]]	+	[[Category: Mycobacterium tuberculosis H37Ra]]
-	[[Category: Arrasate, P]]	+	[[Category: Albesa-Jove D]]
-	[[Category: Carreras-Gonzalez, A]]	+	[[Category: Arrasate P]]
-	[[Category: Comino, N]]	+	[[Category: Carreras-Gonzalez A]]
-	[[Category: Guerin~~, M E~~]]	+	[[Category: Comino N]]
-	[[Category: Rodrigo-Unzueta, A]]	+	[[Category: Guerin ME]]
-	[[Category: Sancho-Vaello, E]]	+	[[Category: Rodrigo-Unzueta A]]
-	[[Category: Urresti, S]]	+	[[Category: Sancho-Vaello E]]
-	~~[[Category: Transferase~~]]	+	[[Category: Urresti S]]

OCA at 06:57, 5 December 2018

2018-12-05T06:57:05Z

←Older revision		Revision as of 06:57, 5 December 2018
Line 3:		Line 3:
	<StructureSection load='5jsx' size='340' side='right' caption='[[5jsx]], [[Resolution\|resolution]] 2.81Å' scene=''>		<StructureSection load='5jsx' size='340' side='right' caption='[[5jsx]], [[Resolution\|resolution]] 2.81Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5jsx]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JSX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JSX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5jsx]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Mycta Mycta]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JSX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JSX FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UPG:URIDINE-5-DIPHOSPHATE-GLUCOSE'>UPG</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UPG:URIDINE-5-DIPHOSPHATE-GLUCOSE'>UPG</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jqx\|5jqx]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jqx\|5jqx]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">MRA_1217 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=419947 MYCTA])</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=5jsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jsx OCA], [http://pdbe.org/5jsx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jsx RCSB], [http://www.ebi.ac.uk/pdbsum/5jsx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jsx 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=5jsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jsx OCA], [http://pdbe.org/5jsx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jsx RCSB], [http://www.ebi.ac.uk/pdbsum/5jsx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jsx ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Glycosyltransferases (GTs) play a central role in nature. They catalyze the transfer of a sugar moiety to a broad range of acceptor substrates. GTs are highly selective enzymes, allowing the recognition of subtle structural differences in the sequences and stereochemistry of their sugar and acceptor substrates. We report here a series of structural snapshots of the reaction center of the retaining glucosyl-3-phosphoglycerate synthase (GpgS). During this sequence of events, we visualize how the enzyme guides the substrates into the reaction center where the glycosyl transfer reaction takes place, and unveil the mechanism of product release, involving multiple conformational changes not only in the substrates/products but also in the enzyme. The structural data are further complemented by metadynamics free-energy calculations, revealing how the equilibrium of loop conformations is modulated along these itineraries. The information reported here represent an important contribution for the understanding of GT enzymes at the molecular level.
		+
		+	Structural Snapshots and Loop Dynamics along the Catalytic Cycle of Glycosyltransferase GpgS.,Albesa-Jove D, Romero-Garcia J, Sancho-Vaello E, Contreras FX, Rodrigo-Unzueta A, Comino N, Carreras-Gonzalez A, Arrasate P, Urresti S, Biarnes X, Planas A, Guerin ME Structure. 2017 Jul 5;25(7):1034-1044.e3. doi: 10.1016/j.str.2017.05.009. Epub, 2017 Jun 15. PMID:28625787<ref>PMID:28625787</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5jsx" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Mycta]]
	[[Category: Albesa-Jove, D]]		[[Category: Albesa-Jove, D]]
	[[Category: Arrasate, P]]		[[Category: Arrasate, P]]

OCA at 13:43, 24 May 2017

2017-05-24T13:43:45Z

←Older revision		Revision as of 13:43, 24 May 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5jsx is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of glucosyl-3-phosphoglycerate synthase from Mycobacterium tuberculosis in complex with Mn2+ and uridine-diphosphate-glucose (UDP-Glc)==
-		+	<StructureSection load='5jsx' size='340' side='right' caption='[[5jsx]], [[Resolution\|resolution]] 2.81Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5jsx]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5JSX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5JSX FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=UPG:URIDINE-5-DIPHOSPHATE-GLUCOSE'>UPG</scene></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5jqx\|5jqx]]</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=5jsx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5jsx OCA], [http://pdbe.org/5jsx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5jsx RCSB], [http://www.ebi.ac.uk/pdbsum/5jsx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5jsx ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Albesa-Jove, D]]
		+	[[Category: Arrasate, P]]
		+	[[Category: Carreras-Gonzalez, A]]
		+	[[Category: Comino, N]]
		+	[[Category: Guerin, M E]]
		+	[[Category: Rodrigo-Unzueta, A]]
		+	[[Category: Sancho-Vaello, E]]
		+	[[Category: Urresti, S]]
		+	[[Category: Transferase]]

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

2016-06-01T13:47:36Z

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

←Older revision

Revision as of 13:47, 1 June 2016

OCA: New page: '''Unreleased structure''' The entry 5jsx is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

2016-06-01T13:47:34Z

New page: '''Unreleased structure''' The entry 5jsx is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5jsx is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]