2ees - Revision history

OCA at 18:44, 20 September 2023

OCA — Wed, 20 Sep 2023 18:44:04 GMT

←Older revision		Revision as of 18:44, 20 September 2023
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	<StructureSection load='2ees' size='340' side='right'caption='[[2ees]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='2ees' size='340' side='right'caption='[[2ees]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ees]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EES OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EES FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ees]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EES OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EES FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=HPA:HYPOXANTHINE'>HPA</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</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]] 1.75Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1u8d\|1u8d]], [[2eet\|2eet]], [[2eeu\|2eeu]], [[2eev\|2eev]], [[2eew\|2eew]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=HPA:HYPOXANTHINE'>HPA</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</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=2ees FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ees OCA], [https://pdbe.org/2ees PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ees RCSB], [https://www.ebi.ac.uk/pdbsum/2ees PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ees 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=2ees FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ees OCA], [https://pdbe.org/2ees PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ees RCSB], [https://www.ebi.ac.uk/pdbsum/2ees PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ees ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus subtilis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Batey~~, R T~~]]	+	[[Category: Batey RT]]
-	[[Category: Edwards~~, A L~~]]	+	[[Category: Edwards AL]]
-	[[Category: Gilbert~~, S D]]~~	+	[[Category: Gilbert SD]]
-	~~[[Category: Double helix]]~~	+
-	~~[[Category: Guanine]]~~	+
-	~~[[Category: Hypoxanthine]]~~	+
-	~~[[Category: Mrna]]~~	+
-	~~[[Category: Riboswitch]]~~	+
-	~~[[Category: Rna]]~~	+
-	~~[[Category: Rna-ligand complex]]~~	+
-	~~[[Category: Three-way junction~~]]	+

OCA at 17:23, 15 December 2021

OCA — Wed, 15 Dec 2021 17:23:32 GMT

←Older revision		Revision as of 17:23, 15 December 2021
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	<StructureSection load='2ees' size='340' side='right'caption='[[2ees]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='2ees' size='340' side='right'caption='[[2ees]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2ees]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EES OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2EES FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2ees]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EES OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2EES FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=HPA:HYPOXANTHINE'>HPA</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=HPA:HYPOXANTHINE'>HPA</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1u8d\|1u8d]], [[2eet\|2eet]], [[2eeu\|2eeu]], [[2eev\|2eev]], [[2eew\|2eew]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1u8d\|1u8d]], [[2eet\|2eet]], [[2eeu\|2eeu]], [[2eev\|2eev]], [[2eew\|2eew]]</div></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=2ees FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ees OCA], [~~http~~://pdbe.org/2ees PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2ees RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2ees PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2ees 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=2ees FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ees OCA], [https://pdbe.org/2ees PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2ees RCSB], [https://www.ebi.ac.uk/pdbsum/2ees PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2ees ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 08:31, 11 March 2020

OCA — Wed, 11 Mar 2020 08:31:39 GMT

←Older revision		Revision as of 08:31, 11 March 2020
Line 1:		Line 1:

	==Guanine riboswitch A21U, U75A mutant bound to hypoxanthine==		==Guanine riboswitch A21U, U75A mutant bound to hypoxanthine==
-	<StructureSection load='2ees' size='340' side='right' caption='[[2ees]], [[Resolution\|resolution]] 1.75Å' scene=''>	+	<StructureSection load='2ees' size='340' side='right'caption='[[2ees]], [[Resolution\|resolution]] 1.75Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2ees]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EES OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EES FirstGlance]. <br>		<table><tr><td colspan='2'>[[2ees]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EES OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EES FirstGlance]. <br>
Line 19:		Line 19:

	==See Also==		==See Also==
-	*[[Riboswitch\|Riboswitch]]	+	*[[Riboswitch 3D structures\|Riboswitch 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Batey, R T]]		[[Category: Batey, R T]]
	[[Category: Edwards, A L]]		[[Category: Edwards, A L]]

OCA at 07:02, 6 June 2018

OCA — Wed, 06 Jun 2018 07:02:41 GMT

←Older revision		Revision as of 07:02, 6 June 2018
Line 1:		Line 1:
		+
	==Guanine riboswitch A21U, U75A mutant bound to hypoxanthine==		==Guanine riboswitch A21U, U75A mutant bound to hypoxanthine==
	<StructureSection load='2ees' size='340' side='right' caption='[[2ees]], [[Resolution\|resolution]] 1.75Å' scene=''>		<StructureSection load='2ees' size='340' side='right' caption='[[2ees]], [[Resolution\|resolution]] 1.75Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=HPA:HYPOXANTHINE'>HPA</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=HPA:HYPOXANTHINE'>HPA</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1u8d\|1u8d]], [[2eet\|2eet]], [[2eeu\|2eeu]], [[2eev\|2eev]], [[2eew\|2eew]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1u8d\|1u8d]], [[2eet\|2eet]], [[2eeu\|2eeu]], [[2eev\|2eev]], [[2eew\|2eew]]</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=2ees FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ees OCA], [http://pdbe.org/2ees PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ees RCSB], [http://www.ebi.ac.uk/pdbsum/2ees 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=2ees FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ees OCA], [http://pdbe.org/2ees PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ees RCSB], [http://www.ebi.ac.uk/pdbsum/2ees PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2ees ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 17:00, 11 September 2015

OCA — Fri, 11 Sep 2015 17:00:31 GMT

←Older revision		Revision as of 17:00, 11 September 2015
Line 5:		Line 5:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=HPA:HYPOXANTHINE'>HPA</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=HPA:HYPOXANTHINE'>HPA</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1u8d\|1u8d]], [[2eet\|2eet]], [[2eeu\|2eeu]], [[2eev\|2eev]], [[2eew\|2eew]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1u8d\|1u8d]], [[2eet\|2eet]], [[2eeu\|2eeu]], [[2eev\|2eev]], [[2eew\|2eew]]</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=2ees FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ees OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ees RCSB], [http://www.ebi.ac.uk/pdbsum/2ees 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=2ees FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ees OCA], [http://pdbe.org/2ees PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2ees RCSB], [http://www.ebi.ac.uk/pdbsum/2ees PDBsum]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 2ees" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==

OCA at 13:58, 17 December 2014

OCA — Wed, 17 Dec 2014 13:58:12 GMT

←Older revision		Revision as of 13:58, 17 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_2ees\| PDB=2ees \| SCENE= }}~~	+	==Guanine riboswitch A21U, U75A mutant bound to hypoxanthine==
-	===Guanine riboswitch A21U, U75A mutant bound to hypoxanthine===	+	<StructureSection load='2ees' size='340' side='right' caption='[[2ees]], [[Resolution\|resolution]] 1.75Å' scene=''>
-	~~{{ABSTRACT_PUBMED_17960911}}~~	+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2ees]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EES OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2EES FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=HPA:HYPOXANTHINE'>HPA</scene>, <scene name='pdbligand=NCO:COBALT+HEXAMMINE(III)'>NCO</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1u8d\|1u8d]], [[2eet\|2eet]], [[2eeu\|2eeu]], [[2eev\|2eev]], [[2eew\|2eew]]</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=2ees FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2ees OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2ees RCSB], [http://www.ebi.ac.uk/pdbsum/2ees PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The purine riboswitch is one of a number of mRNA elements commonly found in the 5'-untranslated region capable of controlling expression in a cis-fashion via its ability to directly bind small-molecule metabolites. Extensive biochemical and structural analysis of the nucleobase-binding domain of the riboswitch, referred to as the aptamer domain, has revealed that the mRNA recognizes its cognate ligand using an intricately folded three-way junction motif that completely encapsulates the ligand. High-affinity binding of the purine nucleobase is facilitated by a distal loop-loop interaction that is conserved between both the adenine and guanine riboswitches. To understand the contribution of conserved nucleotides in both the three-way junction and the loop-loop interaction of this RNA, we performed a detailed mutagenic survey of these elements in the context of an adenine-responsive variant of the xpt-pbuX guanine riboswitch from Bacillus subtilis. The varying ability of these mutants to bind ligand as measured by isothermal titration calorimetry uncovered the conserved nucleotides whose identity is required for purine binding. Crystallographic analysis of the bound form of five mutants and chemical probing of their free state demonstrate that the identity of several universally conserved nucleotides is not essential for formation of the RNA-ligand complex but rather for maintaining a binding-competent form of the free RNA. These data show that conservation patterns in riboswitches arise from a combination of formation of the ligand-bound complex, promoting an open form of the free RNA, and participating in the secondary structural switch with the expression platform.

-	~~==About this Structure==~~	+	Mutational analysis of the purine riboswitch aptamer domain.,Gilbert SD, Love CE, Edwards AL, Batey RT Biochemistry. 2007 Nov 20;46(46):13297-309. Epub 2007 Oct 26. PMID:17960911<ref>PMID:17960911</ref>
-	~~[[2ees]] is a 1 chain structure~~. ~~Full crystallographic information is available from [http~~://~~oca~~.~~weizmann~~.ac.il/~~oca-bin/ocashort?id=2EES OCA].~~	+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>

	==See Also==		==See Also==
	*[[Riboswitch\|Riboswitch]]		*[[Riboswitch\|Riboswitch]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:017960911<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
-	[[Category: Batey, R T.]]	+	</StructureSection>
-	[[Category: Edwards, A L.]]	+	[[Category: Batey, R T]]
-	[[Category: Gilbert, S D.]]	+	[[Category: Edwards, A L]]
		+	[[Category: Gilbert, S D]]
	[[Category: Double helix]]		[[Category: Double helix]]
	[[Category: Guanine]]		[[Category: Guanine]]

OCA at 09:28, 11 March 2013

OCA — Mon, 11 Mar 2013 09:28:03 GMT

←Older revision		Revision as of 09:28, 11 March 2013
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-	[[Image:2ees.png\|left\|200px]]
-
	{{STRUCTURE_2ees\| PDB=2ees \| SCENE= }}		{{STRUCTURE_2ees\| PDB=2ees \| SCENE= }}
-
	===Guanine riboswitch A21U, U75A mutant bound to hypoxanthine===		===Guanine riboswitch A21U, U75A mutant bound to hypoxanthine===
-
	{{ABSTRACT_PUBMED_17960911}}		{{ABSTRACT_PUBMED_17960911}}

OCA: Protected "2ees" [edit=sysop:move=sysop]

OCA — Tue, 14 Aug 2012 16:12:35 GMT

Protected "2ees" [edit=sysop:move=sysop]

←Older revision

Revision as of 16:12, 14 August 2012

OCA at 16:12, 14 August 2012

OCA — Tue, 14 Aug 2012 16:12:33 GMT

←Older revision		Revision as of 16:12, 14 August 2012
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-	{{Seed}}
	[[Image:2ees.png\|left\|200px]]		[[Image:2ees.png\|left\|200px]]

-	<!--
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	{{STRUCTURE_2ees\| PDB=2ees \| SCENE= }}		{{STRUCTURE_2ees\| PDB=2ees \| SCENE= }}

	===Guanine riboswitch A21U, U75A mutant bound to hypoxanthine===		===Guanine riboswitch A21U, U75A mutant bound to hypoxanthine===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17960911}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17960911 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_17960911}}		{{ABSTRACT_PUBMED_17960911}}

	==About this Structure==		==About this Structure==
-	~~2EES is a~~ [[~~Single protein~~]] structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EES OCA].	+	[[2ees]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2EES OCA].
		+
		+	==See Also==
		+	*[[Riboswitch\|Riboswitch]]

	==Reference==		==Reference==
-	~~Mutational analysis of the purine riboswitch aptamer domain., Gilbert SD, Love CE, Edwards AL, Batey RT, Biochemistry. 2007 Nov 20;46(46):13297-309. Epub 2007 Oct 26.~~ PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17960911 17960911]~~	+	<ref group="xtra">PMID:017960911</ref><references group="xtra"/>
-	~~[[Category: Single protein]]~~	+
	[[Category: Batey, R T.]]		[[Category: Batey, R T.]]
	[[Category: Edwards, A L.]]		[[Category: Edwards, A L.]]
Line 33:		Line 23:
	[[Category: Mrna]]		[[Category: Mrna]]
	[[Category: Riboswitch]]		[[Category: Riboswitch]]
		+	[[Category: Rna]]
	[[Category: Rna-ligand complex]]		[[Category: Rna-ligand complex]]
	[[Category: Three-way junction]]		[[Category: Three-way junction]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 10:56:08 2008''

OCA at 07:56, 29 July 2008

OCA — Tue, 29 Jul 2008 07:56:12 GMT

←Older revision		Revision as of 07:56, 29 July 2008
Line 1:		Line 1:
-	[[Image:2ees.~~gif~~\|left\|200px]]	+	{{Seed}}
		+	[[Image:2ees.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_2ees\| PDB=2ees \| SCENE= }}		{{STRUCTURE_2ees\| PDB=2ees \| SCENE= }}

-	~~'''~~Guanine riboswitch A21U, U75A mutant bound to hypoxanthine~~'''~~	+	===Guanine riboswitch A21U, U75A mutant bound to hypoxanthine===


-	~~==Overview==~~	+	<!--
-	The ~~purine riboswitch is one of a number of mRNA elements commonly found in~~ the ~~5'-untranslated region capable of controlling expression in a cis-fashion via its ability~~ to ~~directly bind small-molecule metabolites. Extensive biochemical and structural analysis of~~ the ~~nucleobase-binding domain of the riboswitch, referred to~~ as ~~the aptamer domain, has revealed that the mRNA recognizes its cognate ligand using an intricately folded three-way junction motif that completely encapsulates the ligand~~. ~~High-affinity binding of the purine nucleobase is facilitated by a distal loop-loop interaction that is conserved between both the adenine and guanine riboswitches~~. ~~To understand the contribution of conserved nucleotides in both the three-way junction and the loop-loop interaction of this RNA~~, ~~we performed a detailed mutagenic survey of these elements in~~ the ~~context of an adenine-responsive variant of the xpt-pbuX guanine riboswitch from Bacillus subtilis~~. The varying ability of these mutants to bind ligand as measured by isothermal titration calorimetry uncovered the conserved nucleotides whose identity is required for purine binding. Crystallographic analysis of the bound form of five mutants and chemical probing of their free state demonstrate that the identity of several universally conserved nucleotides is not essential for formation of the RNA-~~ligand complex but rather for maintaining a binding~~-competent form of the free RNA. These data show that conservation patterns in riboswitches arise from a combination of formation of the ligand-bound complex, promoting an open form of the free RNA, and participating in the secondary structural switch with the expression platform.	+	The line below this paragraph, {{ABSTRACT_PUBMED_17960911}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 17960911 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_17960911}}

	==About this Structure==		==About this Structure==
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	[[Category: Rna-ligand complex]]		[[Category: Rna-ligand complex]]
	[[Category: Three-way junction]]		[[Category: Three-way junction]]
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 02~~:26:33 2008''	+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 10:56:08 2008''