6wjr - Revision history

OCA at 14:27, 18 October 2023

OCA — Wed, 18 Oct 2023 14:27:54 GMT

←Older revision		Revision as of 14:27, 18 October 2023
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	<StructureSection load='6wjr' size='340' side='right'caption='[[6wjr]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='6wjr' size='340' side='right'caption='[[6wjr]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6wjr]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WJR OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=6WJR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6wjr]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Fusobacterium_nucleatum Fusobacterium nucleatum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WJR OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6WJR FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <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]] 2.7Å</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=6wjr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wjr OCA], [~~http~~://pdbe.org/6wjr PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6wjr RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6wjr PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6wjr ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <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'>[https://proteopedia.org/fgij/fg.htm?mol=6wjr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wjr OCA], [https://pdbe.org/6wjr PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6wjr RCSB], [https://www.ebi.ac.uk/pdbsum/6wjr PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6wjr 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 6wjr" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6wjr" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Riboswitch 3D structures\|Riboswitch 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Fusobacterium nucleatum]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Stagno~~, J R~~]]	+	[[Category: Stagno JR]]
-	[[Category: Wang, Y X]]	+	[[Category: Wang Y-X]]
-	[[Category: Wilt~~, H M]]~~	+	[[Category: Wilt HM]]
-	~~[[Category: Apo]]~~	+
-	~~[[Category: Riboswitch]]~~	+
-	~~[[Category: Rna]]~~	+
-	~~[[Category: Rna conformation~~]]	+

OCA at 08:10, 11 November 2020

OCA — Wed, 11 Nov 2020 08:10:54 GMT

←Older revision		Revision as of 08:10, 11 November 2020
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	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6wjr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wjr OCA], [http://pdbe.org/6wjr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wjr RCSB], [http://www.ebi.ac.uk/pdbsum/6wjr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wjr ProSAT]</span></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=6wjr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wjr OCA], [http://pdbe.org/6wjr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wjr RCSB], [http://www.ebi.ac.uk/pdbsum/6wjr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wjr ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Knowledge of both apo and holo states of riboswitches aid in elucidating the various mechanisms of ligand-induced conformational "switching" that underpin their gene-regulating capabilities. Previous structural studies on the flavin mononucleotide (FMN)-binding aptamer of the FMN riboswitch, however, have revealed minimal conformational changes associated with ligand binding that do not adequately explain the basis for the switching behavior. We have determined a 2.7-A resolution crystal structure of the ligand-free FMN riboswitch aptamer that is distinct from previously reported structures, particularly in the conformation and orientation of the P1 and P4 helices. The nearly symmetrical tertiary structure provides a mechanism by which one of two pairs of adjacent helices (P3/P4 or P1/P6) undergo collinear stacking in a mutually exclusive manner, in the absence or presence of ligand, respectively. Comparison of these structures suggests the stem-loop that includes P4 and L4 is important for maintaining a global conformational state that, in the absence of ligand, disfavors formation of the P1 regulatory helix. Together, these results provide further insight to the structural basis for conformational switching of the FMN riboswitch.
		+
		+	FMN riboswitch aptamer symmetry facilitates conformational switching through mutually exclusive coaxial stacking configurations.,Wilt HM, Yu P, Tan K, Wang YX, Stagno JR J Struct Biol X. 2020 Aug 6;4:100035. doi: 10.1016/j.yjsbx.2020.100035., eCollection 2020. PMID:33103111<ref>PMID:33103111</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6wjr" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 11:29, 23 September 2020

OCA — Wed, 23 Sep 2020 11:29:52 GMT

←Older revision		Revision as of 11:29, 23 September 2020
Line 1:		Line 1:

	==Apo structure of the FMN riboswitch aptamer domain in the presence of sulfate==		==Apo structure of the FMN riboswitch aptamer domain in the presence of sulfate==
-	<StructureSection load='6wjr' size='340' side='right'caption='[[6wjr]]' scene=''>	+	<StructureSection load='6wjr' size='340' side='right'caption='[[6wjr]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WJR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6WJR FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6wjr]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WJR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6WJR 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=6wjr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wjr OCA], [http://pdbe.org/6wjr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wjr RCSB], [http://www.ebi.ac.uk/pdbsum/6wjr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wjr ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <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://proteopedia.org/fgij/fg.htm?mol=6wjr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wjr OCA], [http://pdbe.org/6wjr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wjr RCSB], [http://www.ebi.ac.uk/pdbsum/6wjr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wjr ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Stagno JR]]	+	[[Category: Stagno, J R]]
-	[[Category: Wang Y-X]]	+	[[Category: Wang, Y X]]
		+	[[Category: Wilt, H M]]
		+	[[Category: Apo]]
		+	[[Category: Riboswitch]]
		+	[[Category: Rna]]
		+	[[Category: Rna conformation]]

OCA at 06:50, 2 September 2020

OCA — Wed, 02 Sep 2020 06:50:11 GMT

←Older revision		Revision as of 06:50, 2 September 2020
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-	'''Unreleased structure'''

-	~~The entry 6wjr is ON HOLD until Paper Publication~~	+	==Apo structure of the FMN riboswitch aptamer domain in the presence of sulfate==
-		+	<StructureSection load='6wjr' size='340' side='right'caption='[[6wjr]]' scene=''>
-	~~Authors: Stagno, J.R., Wang, Y.-X.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6WJR OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6WJR FirstGlance]. <br>
-	~~Description:~~ Apo structure of the FMN riboswitch aptamer domain in the presence of sulfate	+	</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=6wjr FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6wjr OCA], [http://pdbe.org/6wjr PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6wjr RCSB], [http://www.ebi.ac.uk/pdbsum/6wjr PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6wjr ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[~~Category~~: ~~Wang~~, Y.-X]]	+	__TOC__
-	[[Category: Stagno~~, J.R~~]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Stagno JR]]
		+	[[Category: Wang Y-X]]

OCA at 04:50, 10 June 2020

OCA — Wed, 10 Jun 2020 04:50:28 GMT

←Older revision		Revision as of 04:50, 10 June 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Stagno, J.R., Wang, Y.-X.		Authors: Stagno, J.R., Wang, Y.-X.

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

OCA — Wed, 22 Apr 2020 04:18:42 GMT

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

←Older revision

Revision as of 04:18, 22 April 2020

OCA: New page: '''Unreleased structure''' The entry 6wjr is ON HOLD Authors: Stagno, J.R., Wang, Y.-X. Description: Apo structure of the FMN riboswitch aptamer domain in the presence of sulfate [[Cat...

OCA — Wed, 22 Apr 2020 04:18:41 GMT

New page: '''Unreleased structure''' The entry 6wjr is ON HOLD Authors: Stagno, J.R., Wang, Y.-X. Description: Apo structure of the FMN riboswitch aptamer domain in the presence of sulfate [[Cat...

New page

'''Unreleased structure'''

The entry 6wjr is ON HOLD

Authors: Stagno, J.R., Wang, Y.-X.

Description: Apo structure of the FMN riboswitch aptamer domain in the presence of sulfate
[[Category: Unreleased Structures]]
[[Category: Wang, Y.-X]]
[[Category: Stagno, J.R]]