5new - Revision history

OCA at 12:51, 15 November 2023

2023-11-15T12:51:56Z

←Older revision		Revision as of 12:51, 15 November 2023
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	<StructureSection load='5new' size='340' side='right'caption='[[5new]], [[Resolution\|resolution]] 2.51Å' scene=''>		<StructureSection load='5new' size='340' side='right'caption='[[5new]], [[Resolution\|resolution]] 2.51Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5new]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Eco45 Eco45~~] and [~~http~~://en.wikipedia.org/wiki/~~Escherichia_coli~~ Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NEW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5NEW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5new]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli] and [https://en.wikipedia.org/wiki/Escherichia_coli_S88 Escherichia coli S88]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NEW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5NEW FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><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]] 2.511Å</td></tr>
-	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~hfq, ECS88_4758 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=585035 ECO45])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=5new FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5new OCA], [~~http~~://pdbe.org/5new PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5new RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5new PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5new 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=5new FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5new OCA], [https://pdbe.org/5new PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5new RCSB], [https://www.ebi.ac.uk/pdbsum/5new PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5new ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~HFQ_ECO45 HFQ_ECO45]~~] RNA chaperone that binds small regulatory RNA (sRNAs) and mRNAs to facilitate mRNA translational regulation in response to envelope stress, environmental stress and changes in metabolite concentrations. ~~Also binds~~ with high specificity to tRNAs.	+	[https://www.uniprot.org/uniprot/HFQ_ECOLI HFQ_ECOLI] RNA chaperone that binds small regulatory RNA (sRNAs) and mRNAs to facilitate mRNA translational regulation in response to envelope stress, environmental stress and changes in metabolite concentrations. Involved in the regulation of stress responses mediated by the sigma factors RpoS, sigma-E and sigma-32. Binds with high specificity to tRNAs. In vitro, stimulates synthesis of long tails by poly(A) polymerase I. Required for RNA phage Qbeta replication.<ref>PMID:805130</ref> <ref>PMID:10677490</ref> <ref>PMID:11222598</ref> <ref>PMID:17158661</ref> <ref>PMID:19909729</ref> Seems to play a role in persister cell formation; upon overexpression decreases persister cell formation while deletion increases persister formation.<ref>PMID:805130</ref> <ref>PMID:10677490</ref> <ref>PMID:11222598</ref> <ref>PMID:17158661</ref> <ref>PMID:19909729</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 5new" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5new" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Protein Hfq 3D structures\|Protein Hfq 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Eco45]]
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
		+	[[Category: Escherichia coli S88]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Barabas, O]]	+	[[Category: Barabas O]]
-	[[Category: Schulz~~, E C]]~~	+	[[Category: Schulz EC]]
-	~~[[Category: Hfq srna rna-rna interaction base stacking]]~~	+
-	~~[[Category: Rna~~]]	+

OCA at 06:43, 16 October 2019

2019-10-16T06:43:56Z

←Older revision		Revision as of 06:43, 16 October 2019
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	==RNA-RNA base stacking in the crystal structure of an Hfq6:RNA dimer==		==RNA-RNA base stacking in the crystal structure of an Hfq6:RNA dimer==
-	<StructureSection load='5new' size='340' side='right' caption='[[5new]], [[Resolution\|resolution]] 2.51Å' scene=''>	+	<StructureSection load='5new' size='340' side='right'caption='[[5new]], [[Resolution\|resolution]] 2.51Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5new]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NEW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NEW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5new]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Eco45 Eco45] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NEW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NEW FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">hfq, ECS88_4758 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=585035 ECO45])</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=5new FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5new OCA], [http://pdbe.org/5new PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5new RCSB], [http://www.ebi.ac.uk/pdbsum/5new PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5new 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=5new FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5new OCA], [http://pdbe.org/5new PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5new RCSB], [http://www.ebi.ac.uk/pdbsum/5new PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5new ProSAT]</span></td></tr>
	</table>		</table>
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Eco45]]
	[[Category: Escherichia coli]]		[[Category: Escherichia coli]]
		+	[[Category: Large Structures]]
	[[Category: Barabas, O]]		[[Category: Barabas, O]]
	[[Category: Schulz, E C]]		[[Category: Schulz, E C]]
	[[Category: Hfq srna rna-rna interaction base stacking]]		[[Category: Hfq srna rna-rna interaction base stacking]]
	[[Category: Rna]]		[[Category: Rna]]

OCA at 09:19, 4 October 2017

2017-10-04T09:19:07Z

←Older revision		Revision as of 09:19, 4 October 2017
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-	'''Unreleased structure'''

-	~~The entry~~ 5new is ~~ON HOLD~~	+	==RNA-RNA base stacking in the crystal structure of an Hfq6:RNA dimer==
		+	<StructureSection load='5new' size='340' side='right' caption='[[5new]], [[Resolution\|resolution]] 2.51Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5new]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/ ] and [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5NEW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5NEW FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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=5new FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5new OCA], [http://pdbe.org/5new PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5new RCSB], [http://www.ebi.ac.uk/pdbsum/5new PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5new ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/HFQ_ECO45 HFQ_ECO45]] RNA chaperone that binds small regulatory RNA (sRNAs) and mRNAs to facilitate mRNA translational regulation in response to envelope stress, environmental stress and changes in metabolite concentrations. Also binds with high specificity to tRNAs.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The RNA-chaperone Hfq catalyses the annealing of bacterial small RNAs (sRNAs) with target mRNAs to regulate gene expression in response to environmental stimuli. Hfq acts on a diverse set of sRNA-mRNA pairs using a variety of different molecular mechanisms. Here, we present an unusual crystal structure showing two Hfq-RNA complexes interacting via their bound RNA molecules. The structure contains two Hfq6:A18 RNA assemblies positioned face-to-face, with the RNA molecules turned towards each other and connected via interdigitating base stacking interactions at the center. Biochemical data further confirm the observed interaction, and indicate that RNA-mediated contacts occur between Hfq-RNA complexes with various (ARN)X motif containing RNA sequences in vitro, including the stress response regulator OxyS and its target, fhlA. A systematic computational survey also shows that phylogenetically conserved (ARN)X motifs are present in a subset of sRNAs, some of which share similar modular architectures. We hypothesise that Hfq can co-opt RNA-RNA base stacking, an unanticipated structural trick, to promote the interaction of (ARN)X motif containing sRNAs with target mRNAs on a "speed-dating" fashion, thereby supporting their regulatory function.

-	~~Authors~~:	+	Intermolecular base stacking mediates RNA-RNA interaction in a crystal structure of the RNA chaperone Hfq.,Schulz EC, Seiler M, Zuliani C, Voigt F, Rybin V, Pogenberg V, Mucke N, Wilmanns M, Gibson TJ, Barabas O Sci Rep. 2017 Aug 29;7(1):9903. doi: 10.1038/s41598-017-10085-8. PMID:28852099<ref>PMID:28852099</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5new" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Escherichia coli]]
		+	[[Category: Barabas, O]]
		+	[[Category: Schulz, E C]]
		+	[[Category: Hfq srna rna-rna interaction base stacking]]
		+	[[Category: Rna]]

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

2017-04-05T09:58:04Z

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

←Older revision

Revision as of 09:58, 5 April 2017

OCA: New page: '''Unreleased structure''' The entry 5new is ON HOLD Authors: Description: Category: Unreleased Structures

2017-04-05T09:58:02Z

New page: '''Unreleased structure''' The entry 5new is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5new is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]