2gio - Revision history

OCA at 16:36, 13 December 2023

2023-12-13T16:36:45Z

← Older revision		Revision as of 16:36, 13 December 2023
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	==Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum==		==Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum==
	<StructureSection load='2gio' size='340' side='right'caption='[[2gio~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>		<StructureSection load='2gio' size='340' side='right'caption='[[2gio]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GIO FirstGlance]. <br>		<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GIO FirstGlance]. <br>
	</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=2gio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gio OCA], [https://pdbe.org/2gio PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gio RCSB], [https://www.ebi.ac.uk/pdbsum/2gio PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gio ProSAT]</span></td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</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=2gio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gio OCA], [https://pdbe.org/2gio PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gio RCSB], [https://www.ebi.ac.uk/pdbsum/2gio PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gio ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Allain~~, F H~~]]		[[Category: Allain FH]]
	[[Category: Chowdhury, S]]		[[Category: Chowdhury S]]
	[[Category: Maris, C]]		[[Category: Maris C]]
	[[Category: Narberhaus, F]]		[[Category: Narberhaus F]]
	~~[[Category: G-g non cannonical pair]]~~
	~~[[Category: Rna~~]]

OCA at 14:44, 29 December 2021

2021-12-29T14:44:27Z

← Older revision		Revision as of 14:44, 29 December 2021
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	<StructureSection load='2gio' size='340' side='right'caption='[[2gio]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2gio' size='340' side='right'caption='[[2gio]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2GIO FirstGlance]. <br>		<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2GIO FirstGlance]. <br>
	</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=2gio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gio OCA], [~~http~~://pdbe.org/2gio PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2gio RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2gio PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2gio ProSAT]</span></td></tr>		</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=2gio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gio OCA], [https://pdbe.org/2gio PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2gio RCSB], [https://www.ebi.ac.uk/pdbsum/2gio PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2gio ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 11:14, 27 March 2020

2020-03-27T11:14:48Z

← Older revision		Revision as of 11:14, 27 March 2020
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	==Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum==		==Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum==
	<StructureSection load='2gio' size='340' side='right' caption='[[2gio]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2gio' size='340' side='right'caption='[[2gio]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GIO FirstGlance]. <br>		<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GIO FirstGlance]. <br>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: Allain, F H]]		[[Category: Allain, F H]]
	[[Category: Chowdhury, S]]		[[Category: Chowdhury, S]]

OCA at 06:49, 20 June 2018

2018-06-20T06:49:55Z

← Older revision		Revision as of 06:49, 20 June 2018
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	==Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum==		==Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum==
	<StructureSection load='2gio' size='340' side='right' caption='[[2gio]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>		<StructureSection load='2gio' size='340' side='right' caption='[[2gio]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GIO FirstGlance]. <br>		<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GIO FirstGlance]. <br>
	</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=2gio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gio OCA], [http://pdbe.org/2gio PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2gio RCSB], [http://www.ebi.ac.uk/pdbsum/2gio PDBsum]</span></td></tr>		</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=2gio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gio OCA], [http://pdbe.org/2gio PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2gio RCSB], [http://www.ebi.ac.uk/pdbsum/2gio PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2gio ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 00:53, 11 September 2015

2015-09-11T00:53:02Z

← Older revision		Revision as of 00:53, 11 September 2015
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GIO FirstGlance]. <br>		<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GIO FirstGlance]. <br>
	</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=2gio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gio OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2gio RCSB], [http://www.ebi.ac.uk/pdbsum/2gio PDBsum]</span></td></tr>		</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=2gio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gio OCA], [http://pdbe.org/2gio PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2gio RCSB], [http://www.ebi.ac.uk/pdbsum/2gio 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 2gio" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 08:55, 16 January 2015

2015-01-16T08:55:36Z

← Older revision		Revision as of 08:55, 16 January 2015
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Allain, F H.]]		[[Category: Allain, F H]]
	[[Category: Chowdhury, S.]]		[[Category: Chowdhury, S]]
	[[Category: Maris, C.]]		[[Category: Maris, C]]
	[[Category: Narberhaus, F.]]		[[Category: Narberhaus, F]]
	[[Category: G-g non cannonical pair]]		[[Category: G-g non cannonical pair]]
	[[Category: Rna]]		[[Category: Rna]]

OCA at 15:32, 12 October 2014

2014-10-12T15:32:10Z

← Older revision		Revision as of 15:32, 12 October 2014
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	[[~~Image~~:2gio.~~png\|left\|200px~~]]		==Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum==
			<StructureSection load='2gio' size='340' side='right' caption='[[2gio]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2GIO FirstGlance]. <br>
			</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=2gio FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2gio OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2gio RCSB], [http://www.ebi.ac.uk/pdbsum/2gio PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Regulatory RNA elements, like riboswitches, respond to intracellular signals by three-dimensional (3D) conformational changes. RNA thermometers employ a similar strategy to sense temperature changes in the cell and regulate the translational machinery. We present here the first 3D NMR structure of the functional domain of a highly conserved bacterial RNA thermometer containing the ribosome binding site that remains occluded at normal temperatures (30 degrees C). We identified a region adjacent to the Shine-Dalgarno sequence that has a network of weak hydrogen bonds within the RNA helix. With the onset of heat shock at 42 degrees C, destabilisation of the RNA structure initiates at this region and favours the release of the ribosome binding site and of the start codon. Deletion of a highly conserved G residue leads to the formation of a stable regular RNA helix that loses thermosensing ability. Our results indicate that RNA thermometers are able to sense temperature changes without the aid of accessory factors.

	~~{{STRUCTURE_2gio\| PDB=2gio \| SCENE= }}~~		Molecular basis for temperature sensing by an RNA thermometer.,Chowdhury S, Maris C, Allain FH, Narberhaus F EMBO J. 2006 Jun 7;25(11):2487-97. Epub 2006 May 18. PMID:16710302<ref>PMID:16710302</ref>

	~~===Solution Structure of~~ a ~~portion~~ of the ~~5'UTR~~ of ~~HspA mRNA of Bradyrhizobium japonicum===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_16710302}}~~		== References ==
			<references/>
	==~~About this Structure~~==		__TOC__
	~~[[2gio]] is a 1 chain structure. Full experimental information is available from [http:~~//~~oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA].~~		</StructureSection>
	[[Category: Allain, F H.]]		[[Category: Allain, F H.]]
	[[Category: Chowdhury, S.]]		[[Category: Chowdhury, S.]]

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

2013-01-07T12:17:51Z

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

← Older revision	Revision as of 12:17, 7 January 2013
(No difference)

OCA at 12:17, 7 January 2013

2013-01-07T12:17:49Z

← Older revision		Revision as of 12:17, 7 January 2013
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	~~{{Seed}}~~
	[[Image:2gio.png\|left\|200px]]		[[Image:2gio.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_2gio", creates the "Structure Box" on the page.~~
	~~You may change the PDB parameter (which sets the PDB file loaded into the applet)~~
	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~
	~~or leave the SCENE parameter empty for the default display.~~
	~~-->~~
	{{STRUCTURE_2gio\| PDB=2gio \| SCENE= }}		{{STRUCTURE_2gio\| PDB=2gio \| SCENE= }}

	===Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum===		===Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_16710302}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 16710302 is the PubMed ID number.~~
	~~-->~~
	{{ABSTRACT_PUBMED_16710302}}		{{ABSTRACT_PUBMED_16710302}}

	==About this Structure==		==About this Structure==
	Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA].		[[2gio]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA].

	~~==Reference==~~
	Molecular basis for temperature sensing by an RNA thermometer., Chowdhury S, Maris C, Allain FH, Narberhaus F, EMBO J. 2006 Jun 7;25(11):2487-97. Epub 2006 May 18. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16710302 16710302]
	[[Category: Allain, F H.]]		[[Category: Allain, F H.]]
	[[Category: Chowdhury, S.]]		[[Category: Chowdhury, S.]]
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	[[Category: Narberhaus, F.]]		[[Category: Narberhaus, F.]]
	[[Category: G-g non cannonical pair]]		[[Category: G-g non cannonical pair]]
			[[Category: Rna]]
	~~''Page seeded by~~ [~~http~~:~~//oca.weizmann.ac.il/oca OCA~~ ] ~~on Mon Jul 28 16:00:28 2008''~~

OCA at 13:00, 28 July 2008

2008-07-28T13:00:29Z

← Older revision		Revision as of 13:00, 28 July 2008
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	[[Image:2gio.~~gif~~\|left\|200px]]		{{Seed}}
			[[Image:2gio.png\|left\|200px]]

	<!--		<!--
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	{{STRUCTURE_2gio\| PDB=2gio \| SCENE= }}		{{STRUCTURE_2gio\| PDB=2gio \| SCENE= }}

	~~'''~~Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum~~'''~~		===Solution Structure of a portion of the 5'UTR of HspA mRNA of Bradyrhizobium japonicum===


	~~==Overview==~~		<!--
	~~Regulatory RNA elements~~, ~~like riboswitches~~, ~~respond~~ to ~~intracellular signals by three-dimensional~~ (~~3D) conformational changes~~. ~~RNA thermometers employ a similar strategy to sense temperature changes in the cell and regulate the translational machinery~~. We present here the first 3D NMR structure of the functional domain of a highly conserved bacterial RNA thermometer containing the ribosome binding site that remains occluded at normal temperatures (30 degrees C)~~. We identified a region adjacent to the Shine-Dalgarno sequence that has a network of weak hydrogen bonds within the RNA helix. With the onset of heat shock at 42 degrees C~~, ~~destabilisation of the RNA structure initiates at this region and favours the release of the ribosome binding site and of~~ the start codon. Deletion of a highly conserved G residue leads to the formation of a stable regular RNA helix that loses thermosensing ability. Our results indicate that RNA thermometers are able to sense temperature changes without the aid of accessory factors.		The line below this paragraph, {{ABSTRACT_PUBMED_16710302}}, adds the Publication Abstract to the page
			(as it appears on PubMed at http://www.pubmed.gov), where 16710302 is the PubMed ID number.
			-->
			{{ABSTRACT_PUBMED_16710302}}

	==About this Structure==		==About this Structure==
	Full ~~crystallographic~~ information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA].		Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2GIO OCA].

	==Reference==		==Reference==
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	[[Category: Narberhaus, F.]]		[[Category: Narberhaus, F.]]
	[[Category: G-g non cannonical pair]]		[[Category: G-g non cannonical pair]]
	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Sun May 4 05~~:09:01 2008''
			''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Jul 28 16:00:28 2008''