5wq1 - Revision history

OCA at 19:25, 29 May 2024

OCA — Wed, 29 May 2024 19:25:36 GMT

←Older revision		Revision as of 19:25, 29 May 2024
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5wq1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WQ1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WQ1 FirstGlance]. <br>		<table><tr><td colspan='2'>[[5wq1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WQ1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WQ1 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=5wq1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wq1 OCA], [https://pdbe.org/5wq1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wq1 RCSB], [https://www.ebi.ac.uk/pdbsum/5wq1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wq1 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=5wq1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wq1 OCA], [https://pdbe.org/5wq1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wq1 RCSB], [https://www.ebi.ac.uk/pdbsum/5wq1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wq1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 10:29, 14 June 2023

OCA — Wed, 14 Jun 2023 10:29:52 GMT

←Older revision		Revision as of 10:29, 14 June 2023
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	==Solution Structure of the first stem-loop of Escherichia coli DsrA RNA==		==Solution Structure of the first stem-loop of Escherichia coli DsrA RNA==
-	<StructureSection load='5wq1' size='340' side='right'caption='[[5wq1~~]], [[NMR_Ensembles_of_Models \| 20 NMR models~~]]' scene=''>	+	<StructureSection load='5wq1' size='340' side='right'caption='[[5wq1]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wq1]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WQ1 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5WQ1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wq1]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WQ1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WQ1 FirstGlance]. <br>
-	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5wq1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wq1 OCA], [~~http~~://pdbe.org/5wq1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5wq1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5wq1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5wq1 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=5wq1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wq1 OCA], [https://pdbe.org/5wq1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wq1 RCSB], [https://www.ebi.ac.uk/pdbsum/5wq1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wq1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Escherichia coli]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Shi, Y]]	+	[[Category: Shi Y]]
-	[[Category: Wu, J]]	+	[[Category: Wu J]]
-	[[Category: Wu, P]]	+	[[Category: Wu P]]
-	~~[[Category: First stem-loop]]~~	+
-	~~[[Category: Rna~~]]	+

OCA at 07:14, 7 October 2020

OCA — Wed, 07 Oct 2020 07:14:05 GMT

←Older revision		Revision as of 07:14, 7 October 2020
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	==Solution Structure of the first stem-loop of Escherichia coli DsrA RNA==		==Solution Structure of the first stem-loop of Escherichia coli DsrA RNA==
-	<StructureSection load='5wq1' size='340' side='right' caption='[[5wq1]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>	+	<StructureSection load='5wq1' size='340' side='right'caption='[[5wq1]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wq1]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WQ1 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5WQ1 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wq1]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WQ1 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5WQ1 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=5wq1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wq1 OCA], [http://pdbe.org/5wq1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wq1 RCSB], [http://www.ebi.ac.uk/pdbsum/5wq1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wq1 ProSAT]</span></td></tr>	+	</td></tr><tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5wq1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wq1 OCA], [http://pdbe.org/5wq1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wq1 RCSB], [http://www.ebi.ac.uk/pdbsum/5wq1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wq1 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 19:		Line 19:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Shi, Y]]		[[Category: Shi, Y]]
	[[Category: Wu, J]]		[[Category: Wu, J]]

OCA at 06:16, 1 November 2017

OCA — Wed, 01 Nov 2017 06:16:54 GMT

←Older revision		Revision as of 06:16, 1 November 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5wq1 is ~~ON HOLD until Paper~~ Publication	+	==Solution Structure of the first stem-loop of Escherichia coli DsrA RNA==
		+	<StructureSection load='5wq1' size='340' side='right' caption='[[5wq1]], [[NMR_Ensembles_of_Models \| 20 NMR models]]' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5wq1]] is a 1 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WQ1 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WQ1 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=5wq1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wq1 OCA], [http://pdbe.org/5wq1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wq1 RCSB], [http://www.ebi.ac.uk/pdbsum/5wq1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wq1 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	In bacteria, small non-coding RNAs (sRNAs) could function in gene regulations under variable stress responses. DsrA is an approximately 90-nucleotide Hfq-dependent sRNA found in Escherichia coli. It regulates the translation and degradation of multiple mRNAs, such as rpoS, hns, mreB and rbsD mRNAs. However, its functional structure and particularly how it regulates multiple mRNAs remain obscure. Using NMR, we investigated the solution structures of the full-length and isolated stem-loops of DsrA. We first solved the NMR structure of the first stem-loop (SL1), and further studied the melting process of the SL1 induced by the base-pairing with the rpoS mRNA and the A-form duplex formation of the DsrA/rpoS complex. The secondary structure of the second stem-loop (SL2) was also determined, which contains a lower stem and an upper stem with distinctive stability. Interestingly, two conformational states of SL2 in dynamic equilibrium were observed in our NMR spectra, suggesting that the conformational selection may occur during the base-pairing between DsrA and mRNAs. In summary, our study suggests that the conformational plasticity of DsrA may represent a special mechanism sRNA employed to deal with its multiple regulatory targets of mRNA.

-	~~Authors: Wu, P~~., Wu, J., Shi, Y.	+	The important conformational plasticity of DsrA sRNA for adapting multiple target regulation.,Wu P, Liu X, Yang L, Sun Y, Gong Q, Wu J, Shi Y Nucleic Acids Res. 2017 Sep 19;45(16):9625-9639. doi: 10.1093/nar/gkx570. PMID:28934467<ref>PMID:28934467</ref>

-	~~Description: Solution Structure~~ of the ~~first stem-loop~~ of ~~Escherichia coli DsrA RNA~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5wq1" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Shi, Y]]
	[[Category: Wu, J]]		[[Category: Wu, J]]
	[[Category: Wu, P]]		[[Category: Wu, P]]
-	[[Category: ~~Shi, Y~~]]	+	[[Category: First stem-loop]]
		+	[[Category: Rna]]

OCA at 19:46, 15 March 2017

OCA — Wed, 15 Mar 2017 19:46:12 GMT

←Older revision		Revision as of 19:46, 15 March 2017
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	Description: Solution Structure of the first stem-loop of Escherichia coli DsrA RNA		Description: Solution Structure of the first stem-loop of Escherichia coli DsrA RNA
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Shi, Y]]
	[[Category: Wu, J]]		[[Category: Wu, J]]
	[[Category: Wu, P]]		[[Category: Wu, P]]
		+	[[Category: Shi, Y]]

OCA at 20:35, 22 December 2016

OCA — Thu, 22 Dec 2016 20:35:09 GMT

←Older revision		Revision as of 20:35, 22 December 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5wq1 is ON HOLD	+	The entry 5wq1 is ON HOLD until Paper Publication

	Authors: Wu, P., Wu, J., Shi, Y.		Authors: Wu, P., Wu, J., Shi, Y.

-	Description: Solution Structure of first stem-loop of Escherichia coli DsrA RNA	+	Description: Solution Structure of the first stem-loop of Escherichia coli DsrA RNA
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Shi, Y]]		[[Category: Shi, Y]]
	[[Category: Wu, J]]		[[Category: Wu, J]]
	[[Category: Wu, P]]		[[Category: Wu, P]]

OCA: Protected "5wq1" [edit=sysop:move=sysop]

OCA — Fri, 09 Dec 2016 18:16:23 GMT

Protected "5wq1" [edit=sysop:move=sysop]

←Older revision

Revision as of 18:16, 9 December 2016

OCA: New page: '''Unreleased structure''' The entry 5wq1 is ON HOLD Authors: Wu, P., Wu, J., Shi, Y. Description: Solution Structure of first stem-loop of Escherichia coli DsrA RNA [[Category: Unrele...

OCA — Fri, 09 Dec 2016 18:16:21 GMT

New page: '''Unreleased structure''' The entry 5wq1 is ON HOLD Authors: Wu, P., Wu, J., Shi, Y. Description: Solution Structure of first stem-loop of Escherichia coli DsrA RNA [[Category: Unrele...

New page

'''Unreleased structure'''

The entry 5wq1 is ON HOLD

Authors: Wu, P., Wu, J., Shi, Y.

Description: Solution Structure of first stem-loop of Escherichia coli DsrA RNA
[[Category: Unreleased Structures]]
[[Category: Shi, Y]]
[[Category: Wu, J]]
[[Category: Wu, P]]