6mwn - Revision history

OCA at 06:40, 11 October 2023

2023-10-11T06:40:14Z

←Older revision		Revision as of 06:40, 11 October 2023
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	<StructureSection load='6mwn' size='340' side='right'caption='[[6mwn]], [[Resolution\|resolution]] 2.84Å' scene=''>		<StructureSection load='6mwn' size='340' side='right'caption='[[6mwn]], [[Resolution\|resolution]] 2.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mwn]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Human Human~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MWN OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6MWN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mwn]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Hepatovirus_A Hepatovirus A] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MWN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6MWN FirstGlance]. <br>
-	</td></tr><tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non~~-~~Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</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]] 2.838Å</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=6mwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mwn OCA], [~~http~~://pdbe.org/6mwn PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6mwn RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6mwn PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6mwn ProSAT]</span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</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=6mwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mwn OCA], [https://pdbe.org/6mwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6mwn RCSB], [https://www.ebi.ac.uk/pdbsum/6mwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6mwn 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 6mwn" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6mwn" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human~~]]	+	[[Category: Hepatovirus A]]
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Koirala, D]]	+	[[Category: Koirala D]]
-	[[Category: Piccirilli~~, J A~~]]	+	[[Category: Piccirilli JA]]
-	[[Category: Shao, Y]]	+	[[Category: Shao Y]]
-	~~[[Category: Chaperone assisted rna crystallography]]~~	+
-	~~[[Category: Fab antibody]]~~	+
-	~~[[Category: Hepatitis a virus]]~~	+
-	~~[[Category: Ire]]~~	+
-	~~[[Category: Phage display]]~~	+
-	~~[[Category: Rna]]~~	+
-	~~[[Category: Rna-immune system complex~~]]	+

OCA at 06:36, 21 August 2019

2019-08-21T06:36:15Z

←Older revision		Revision as of 06:36, 21 August 2019
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	<StructureSection load='6mwn' size='340' side='right'caption='[[6mwn]], [[Resolution\|resolution]] 2.84Å' scene=''>		<StructureSection load='6mwn' size='340' side='right'caption='[[6mwn]], [[Resolution\|resolution]] 2.84Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6mwn]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MWN FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6mwn]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Human Human]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MWN FirstGlance]. <br>
	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></td></tr>		</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</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=6mwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mwn OCA], [http://pdbe.org/6mwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mwn RCSB], [http://www.ebi.ac.uk/pdbsum/6mwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mwn 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=6mwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mwn OCA], [http://pdbe.org/6mwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mwn RCSB], [http://www.ebi.ac.uk/pdbsum/6mwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mwn ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Picornaviral IRES elements are essential for initiating the cap-independent viral translation. However, three-dimensional structures of these elements remain elusive. Here, we report a 2.84-A resolution crystal structure of hepatitis A virus IRES domain V (dV) in complex with a synthetic antibody fragment-a crystallization chaperone. The RNA adopts a three-way junction structure, topologically organized by an adenine-rich stem-loop motif. Despite no obvious sequence homology, the dV architecture shows a striking similarity to a circularly permuted form of encephalomyocarditis virus J-K domain, suggesting a conserved strategy for organizing the domain architecture. Recurrence of the motif led us to use homology modeling tools to compute a 3-dimensional structure of the corresponding domain of foot-and-mouth disease virus, revealing an analogous domain organizing motif. The topological conservation observed among these IRESs and other viral domains implicates a structured three-way junction as an architectural scaffold to pre-organize helical domains for recruiting the translation initiation machinery.
		+
		+	A conserved RNA structural motif for organizing topology within picornaviral internal ribosome entry sites.,Koirala D, Shao Y, Koldobskaya Y, Fuller JR, Watkins AM, Shelke SA, Pilipenko EV, Das R, Rice PA, Piccirilli JA Nat Commun. 2019 Aug 9;10(1):3629. doi: 10.1038/s41467-019-11585-z. PMID:31399592<ref>PMID:31399592</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6mwn" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Human]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Koirala, D]]		[[Category: Koirala, D]]

OCA at 16:38, 14 August 2019

2019-08-14T16:38:01Z

←Older revision		Revision as of 16:38, 14 August 2019
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-	'''Unreleased structure'''

-	~~The entry~~ 6mwn is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of hepatitis A virus IRES domain V in complex with Fab HAVx==
-		+	<StructureSection load='6mwn' size='340' side='right'caption='[[6mwn]], [[Resolution\|resolution]] 2.84Å' scene=''>
-	~~Authors~~: ~~Koirala~~, D., ~~Shao~~, Y., ~~Piccirilli~~, J.A.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6mwn]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6MWN OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6MWN FirstGlance]. <br>
-	~~Description: Crystal structure of hepatitis A virus IRES domain V in complex with Fab HAVx~~	+	</td></tr><tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=GTP:GUANOSINE-5-TRIPHOSPHATE'>GTP</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<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=6mwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6mwn OCA], [http://pdbe.org/6mwn PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6mwn RCSB], [http://www.ebi.ac.uk/pdbsum/6mwn PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6mwn ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Koirala, D]]		[[Category: Koirala, D]]
		+	[[Category: Piccirilli, J A]]
	[[Category: Shao, Y]]		[[Category: Shao, Y]]
-	[[Category: ~~Piccirilli, J.A~~]]	+	[[Category: Chaperone assisted rna crystallography]]
		+	[[Category: Fab antibody]]
		+	[[Category: Hepatitis a virus]]
		+	[[Category: Ire]]
		+	[[Category: Phage display]]
		+	[[Category: Rna]]
		+	[[Category: Rna-immune system complex]]

OCA at 05:42, 21 May 2019

2019-05-21T05:42:48Z

←Older revision		Revision as of 05:42, 21 May 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Koirala, D., Shao, Y., Piccirilli, J.A.		Authors: Koirala, D., Shao, Y., Piccirilli, J.A.

OCA at 04:55, 27 March 2019

2019-03-27T04:55:05Z

←Older revision		Revision as of 04:55, 27 March 2019
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6mwn is ON HOLD ~~until Paper Publication~~	+	The entry 6mwn is ON HOLD

	Authors: Koirala, D., Shao, Y., Piccirilli, J.A.		Authors: Koirala, D., Shao, Y., Piccirilli, J.A.

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

2018-11-07T10:53:56Z

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

←Older revision

Revision as of 10:53, 7 November 2018

OCA: New page: '''Unreleased structure''' The entry 6mwn is ON HOLD until Paper Publication Authors: Koirala, D., Shao, Y., Piccirilli, J.A. Description: Crystal structure of hepatitis A virus IRES d...

2018-11-07T10:53:55Z

New page: '''Unreleased structure''' The entry 6mwn is ON HOLD until Paper Publication Authors: Koirala, D., Shao, Y., Piccirilli, J.A. Description: Crystal structure of hepatitis A virus IRES d...

New page

'''Unreleased structure'''

The entry 6mwn is ON HOLD until Paper Publication

Authors: Koirala, D., Shao, Y., Piccirilli, J.A.

Description: Crystal structure of hepatitis A virus IRES domain V in complex with Fab HAVx
[[Category: Unreleased Structures]]
[[Category: Koirala, D]]
[[Category: Shao, Y]]
[[Category: Piccirilli, J.A]]