6e1u - Revision history

OCA at 06:17, 11 October 2023

2023-10-11T06:17:25Z

←Older revision		Revision as of 06:17, 11 October 2023
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	<StructureSection load='6e1u' size='340' side='right'caption='[[6e1u]], [[Resolution\|resolution]] 1.94Å' scene=''>		<StructureSection load='6e1u' size='340' side='right'caption='[[6e1u]], [[Resolution\|resolution]] 1.94Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6e1u]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6E1U OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6E1U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6e1u]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Caldanaerobacter_subterraneus_subsp._tengcongensis Caldanaerobacter subterraneus subsp. tengcongensis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6E1U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6E1U FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HMJ:2-[(dibenzo[b,d]furan-2-yl)oxy]-N,N-dimethylethan-1-amine'>HMJ</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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]] 1.94Å</td></tr>
-	~~<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat">~~<scene name='pdbligand=N:ANY+5-MONOPHOSPHATE+NUCLEOTIDE'>N</scene></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HMJ:2-[(dibenzo[b,d]furan-2-yl)oxy]-N,N-dimethylethan-1-amine'>HMJ</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=N:ANY+5-MONOPHOSPHATE+NUCLEOTIDE'>N</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=6e1u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6e1u OCA], [~~http~~://pdbe.org/6e1u PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6e1u RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6e1u PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6e1u 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=6e1u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6e1u OCA], [https://pdbe.org/6e1u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6e1u RCSB], [https://www.ebi.ac.uk/pdbsum/6e1u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6e1u ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 6e1u" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6e1u" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Riboswitch 3D structures\|Riboswitch 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Caldanaerobacter subterraneus subsp. tengcongensis]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Amare, A R.Ferre-D~~]]	+	[[Category: Connelly CM]]
-	[[Category: ~~Connelly, C M~~]]	+	[[Category: Ferre-D'Amare AR]]
-	[[Category: Numata, T]]	+	[[Category: Numata T]]
-	[[Category: Schneekloth~~, J S]]~~	+	[[Category: Schneekloth JS]]
-	~~[[Category: Complex]]~~	+
-	~~[[Category: Preq1 riboswitch]]~~	+
-	~~[[Category: Rna]]~~	+
-	~~[[Category: Synthetic compound~~]]	+

OCA at 06:47, 17 April 2019

2019-04-17T06:47:08Z

←Older revision		Revision as of 06:47, 17 April 2019
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	<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=6e1u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6e1u OCA], [http://pdbe.org/6e1u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6e1u RCSB], [http://www.ebi.ac.uk/pdbsum/6e1u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6e1u 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=6e1u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6e1u OCA], [http://pdbe.org/6e1u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6e1u RCSB], [http://www.ebi.ac.uk/pdbsum/6e1u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6e1u ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Riboswitches are naturally occurring RNA aptamers that regulate gene expression by binding to specific small molecules. Riboswitches control the expression of essential bacterial genes and are important models for RNA-small molecule recognition. Here, we report the discovery of a class of synthetic small molecules that bind to PreQ1 riboswitch aptamers. These molecules bind specifically and reversibly to the aptamers with high affinity and induce a conformational change. Furthermore, the ligands modulate riboswitch activity through transcriptional termination despite no obvious chemical similarity to the cognate ligand. X-ray crystallographic studies reveal that the ligands share a binding site with the cognate ligand but make different contacts. Finally, alteration of the chemical structure of the ligand causes changes in the mode of RNA binding and affects regulatory function. Thus, target- and structure-based approaches can be used to identify and understand the mechanism of synthetic ligands that bind to and regulate complex, folded RNAs.
		+
		+	Synthetic ligands for PreQ1 riboswitches provide structural and mechanistic insights into targeting RNA tertiary structure.,Connelly CM, Numata T, Boer RE, Moon MH, Sinniah RS, Barchi JJ, Ferre-D'Amare AR, Schneekloth JS Jr Nat Commun. 2019 Apr 2;10(1):1501. doi: 10.1038/s41467-019-09493-3. PMID:30940810<ref>PMID:30940810</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6e1u" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 07:11, 10 April 2019

2019-04-10T07:11:36Z

←Older revision		Revision as of 07:11, 10 April 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6e1u ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of a class I PreQ1 riboswitch complexed with a synthetic compound 2: 2-[(dibenzo[b,d]furan-2-yl)oxy]-N,N-dimethylethan-1-amine==
-		+	<StructureSection load='6e1u' size='340' side='right'caption='[[6e1u]], [[Resolution\|resolution]] 1.94Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6e1u]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6E1U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6E1U FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=HMJ:2-[(dibenzo[b,d]furan-2-yl)oxy]-N,N-dimethylethan-1-amine'>HMJ</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=N:ANY+5-MONOPHOSPHATE+NUCLEOTIDE'>N</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=6e1u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6e1u OCA], [http://pdbe.org/6e1u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6e1u RCSB], [http://www.ebi.ac.uk/pdbsum/6e1u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6e1u ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Amare, A R.Ferre-D]]
		+	[[Category: Connelly, C M]]
		+	[[Category: Numata, T]]
		+	[[Category: Schneekloth, J S]]
		+	[[Category: Complex]]
		+	[[Category: Preq1 riboswitch]]
		+	[[Category: Rna]]
		+	[[Category: Synthetic compound]]

OCA at 05:52, 25 July 2018

2018-07-25T05:52:00Z

←Older revision		Revision as of 05:52, 25 July 2018
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6e1u is ON HOLD	+	The entry 6e1u is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6e1u" [edit=sysop:move=sysop]

2018-07-18T05:40:24Z

Protected "6e1u" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:40, 18 July 2018

OCA: New page: '''Unreleased structure''' The entry 6e1u is ON HOLD Authors: Description: Category: Unreleased Structures

2018-07-18T05:40:22Z

New page: '''Unreleased structure''' The entry 6e1u is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6e1u is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]