3rqv - Revision history

OCA: Redirecting to 4v4m

2014-12-10T15:34:32Z

Redirecting to 4v4m

←Older revision		Revision as of 15:34, 10 December 2014
Line 1:		Line 1:
-	~~==1.45 Angstrom Structure of STNV coat protein (half of the capsid, the other half in PDB 1VTZ)==~~	+	#REDIRECT [[4v4m]] This PDB entry is obsolete and replaced by 4v4m
-	~~<StructureSection load='3rqv' size='340' side='right' caption='~~[[~~3rqv]], [[Resolution\|resolution]] 1.45Å' scene=''>~~	+
-	~~== Structural highlights ==~~	+
-	~~<table><tr><td colspan='2'>[[3rqv~~]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Tobacco_necrosis_satellite_virus_1 Tobacco necrosis satellite virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RQV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RQV FirstGlance]. <br>	+
-	~~</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>~~	+
-	~~<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1vtz\|1vtz]], [[3s4g\|3s4g]]</td></tr>~~	+
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3rqv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rqv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rqv RCSB], [http://www.ebi.ac.uk/pdbsum/3rqv PDBsum]</span></td></tr>	+
-	~~<table>~~	+
-	~~<div style="background-color:#fffaf0;">~~	+
-	~~== Publication Abstract from PubMed ==~~	+
-	A codon-optimised gene has been expressed in Escherichia coli to produce the coat protein (CP) of the Satellite Tobacco Necrosis Virus. This protein assembles in vivo into capsids closely resembling those of the T=1 wild-type virus. These virus-like particles (VLPs) package the recombinant mRNA transcript and can be disassembled and reassembled using different buffer conditions. The X-ray crystal structure of the VLP has been solved and refined at 1.4 A resolution and shown to be very similar to that of wild-type Satellite Tobacco Necrosis Virus, except that icosahedral symmetry constraints could be removed to reveal differences between subunits, presumably owing to crystal packing. An additional low-resolution X-ray crystal structure determination revealed well-ordered RNA fragments lodged near the inside surface of the capsid, close to basic clusters formed by the N-terminal helices that project into the interior of the particle. The RNA consists of multiple copies of a 3-bp helical stem, with a single unpaired base at the 3' end, and probably consists of a number of short stem-loops where the loop region is disordered. The arrangement of the RNA is different from that observed in other satellite viruses.	+
-		+
-	Construction and Crystal Structure of Recombinant STNV Capsids.,Lane SW, Dennis CA, Lane CL, Trinh CH, Rizkallah PJ, Stockley PG, Phillips SE J Mol Biol. 2011 Oct 14;413(1):41-50. Epub 2011 Aug 3. PMID:21839089<ref>PMID:21839089</ref>	+
-		+
-	~~From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>~~	+
-	~~</div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
-	~~__TOC__~~	+
-	~~</StructureSection>~~	+
-	~~[[Category: Tobacco necrosis satellite virus 1]]~~	+
-	~~[[Category: Dennis, C A.]]~~	+
-	~~[[Category: Lane, C L.]]~~	+
-	~~[[Category: Lane, S W.]]~~	+
-	~~[[Category: Phillips, S E.V.]]~~	+
-	~~[[Category: Rizkallah, P J.]]~~	+
-	~~[[Category: Stockley, P G.]]~~	+
-	~~[[Category: Trinh, C H.]]~~	+
-	~~[[Category: Coat protein]]~~	+
-	~~[[Category: Jelly-roll beta-sandwich]]~~	+
-	~~[[Category: Virus]]~~	+

OCA at 04:49, 5 June 2014

2014-06-05T04:49:43Z

←Older revision		Revision as of 04:49, 5 June 2014
Line 1:		Line 1:
-	[[~~Image:~~3rqv.~~png~~\|~~left~~\|~~200px~~]]	+	==1.45 Angstrom Structure of STNV coat protein (half of the capsid, the other half in PDB 1VTZ)==
		+	<StructureSection load='3rqv' size='340' side='right' caption='[[3rqv]], [[Resolution\|resolution]] 1.45Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3rqv]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Tobacco_necrosis_satellite_virus_1 Tobacco necrosis satellite virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RQV OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3RQV FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1vtz\|1vtz]], [[3s4g\|3s4g]]</td></tr>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3rqv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3rqv OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3rqv RCSB], [http://www.ebi.ac.uk/pdbsum/3rqv PDBsum]</span></td></tr>
		+	<table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	A codon-optimised gene has been expressed in Escherichia coli to produce the coat protein (CP) of the Satellite Tobacco Necrosis Virus. This protein assembles in vivo into capsids closely resembling those of the T=1 wild-type virus. These virus-like particles (VLPs) package the recombinant mRNA transcript and can be disassembled and reassembled using different buffer conditions. The X-ray crystal structure of the VLP has been solved and refined at 1.4 A resolution and shown to be very similar to that of wild-type Satellite Tobacco Necrosis Virus, except that icosahedral symmetry constraints could be removed to reveal differences between subunits, presumably owing to crystal packing. An additional low-resolution X-ray crystal structure determination revealed well-ordered RNA fragments lodged near the inside surface of the capsid, close to basic clusters formed by the N-terminal helices that project into the interior of the particle. The RNA consists of multiple copies of a 3-bp helical stem, with a single unpaired base at the 3' end, and probably consists of a number of short stem-loops where the loop region is disordered. The arrangement of the RNA is different from that observed in other satellite viruses.

-	~~<!--~~	+	Construction and Crystal Structure of Recombinant STNV Capsids.,Lane SW, Dennis CA, Lane CL, Trinh CH, Rizkallah PJ, Stockley PG, Phillips SE J Mol Biol. 2011 Oct 14;413(1):41-50. Epub 2011 Aug 3. PMID:21839089<ref>PMID:21839089</ref>
-	~~The line below this paragraph~~, ~~containing "STRUCTURE_3rqv"~~, ~~creates the "Structure Box" on the page~~.	+
-	~~You may change the PDB parameter~~ (~~which sets the PDB file loaded into the applet~~)	+
-	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~	+
-	~~or leave the SCENE parameter empty for the default display.~~	+
-	-->	+
-	~~{{STRUCTURE_3rqv\| PDB=3rqv \| SCENE= }}~~	+

-	~~===1.45 Angstrom Structure of STNV coat protein (half~~ of the ~~capsid, the other half in PDB 1VTZ)===~~	+	From MEDLINEÂ®/PubMedÂ®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-		+	== References ==
-	~~<!--~~	+	<references/>
-	~~The line below this paragraph, {{ABSTRACT_PUBMED_21839089}}, adds the Publication Abstract to the page~~	+	__TOC__
-	~~(as it appears on PubMed at http://www~~.~~pubmed~~.~~gov), where 21839089 is the PubMed ID number~~.	+	</StructureSection>
-	-->	+
-	~~{{ABSTRACT_PUBMED_21839089}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3rqv]] is a 30 chain structure with sequence from [http:~~//en.wikipedia.org/wiki/Tobacco_necrosis_satellite_virus_1 Tobacco necrosis satellite virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RQV OCA].	+
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:021839089<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Tobacco necrosis satellite virus 1]]		[[Category: Tobacco necrosis satellite virus 1]]
	[[Category: Dennis, C A.]]		[[Category: Dennis, C A.]]

OCA at 05:36, 5 October 2011

2011-10-05T05:36:41Z

←Older revision		Revision as of 05:36, 5 October 2011
Line 1:		Line 1:
-	[[Image:3rqv.~~jpg~~\|left\|200px]]	+	[[Image:3rqv.png\|left\|200px]]

	<!--		<!--
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	===1.45 Angstrom Structure of STNV coat protein (half of the capsid, the other half in PDB 1VTZ)===		===1.45 Angstrom Structure of STNV coat protein (half of the capsid, the other half in PDB 1VTZ)===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21839089}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21839089 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21839089}}

	==About this Structure==		==About this Structure==
	[[3rqv]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Tobacco_necrosis_satellite_virus_1 Tobacco necrosis satellite virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RQV OCA].		[[3rqv]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Tobacco_necrosis_satellite_virus_1 Tobacco necrosis satellite virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RQV OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021839089</ref><references group="xtra"/>
	[[Category: Tobacco necrosis satellite virus 1]]		[[Category: Tobacco necrosis satellite virus 1]]
	[[Category: Dennis, C A.]]		[[Category: Dennis, C A.]]

OCA at 09:00, 3 August 2011

2011-08-03T09:00:40Z

←Older revision		Revision as of 09:00, 3 August 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3rqv.jpg\|left\|200px]]

-	The ~~entry 3rqv~~ is ~~ON HOLD~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3rqv", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_3rqv\| PDB=3rqv \| SCENE= }}

-	~~Authors: Lane, S.W~~., ~~Dennis, C.A., Lane, C.L., Trinh, C.H., Rizkallah, P.J., Stockley, P.G., Phillips, S.E.V.~~	+	===1.45 Angstrom Structure of STNV coat protein (half of the capsid, the other half in PDB 1VTZ)===

-	~~Description~~: 1.~~45 Ang Structure of STNV coat~~ protein	+
		+	==About this Structure==
		+	[[3rqv]] is a 30 chain structure with sequence from [http://en.wikipedia.org/wiki/Tobacco_necrosis_satellite_virus_1 Tobacco necrosis satellite virus 1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3RQV OCA].
		+	[[Category: Tobacco necrosis satellite virus 1]]
		+	[[Category: Dennis, C A.]]
		+	[[Category: Lane, C L.]]
		+	[[Category: Lane, S W.]]
		+	[[Category: Phillips, S E.V.]]
		+	[[Category: Rizkallah, P J.]]
		+	[[Category: Stockley, P G.]]
		+	[[Category: Trinh, C H.]]
		+	[[Category: Coat protein]]
		+	[[Category: Jelly-roll beta-sandwich]]
		+	[[Category: Virus]]

OCA: Protected "3rqv" [edit=sysop:move=sysop]

2011-05-04T06:37:01Z

Protected "3rqv" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:37, 4 May 2011

OCA: New page: '''Unreleased structure''' The entry 3rqv is ON HOLD Authors: Lane, S.W., Dennis, C.A., Lane, C.L., Trinh, C.H., Rizkallah, P.J., Stockley, P.G., Phillips, S.E.V. Description: 1.45 Ang...

2011-05-04T06:37:00Z

New page: '''Unreleased structure''' The entry 3rqv is ON HOLD Authors: Lane, S.W., Dennis, C.A., Lane, C.L., Trinh, C.H., Rizkallah, P.J., Stockley, P.G., Phillips, S.E.V. Description: 1.45 Ang...

New page

'''Unreleased structure'''

The entry 3rqv is ON HOLD

Authors: Lane, S.W., Dennis, C.A., Lane, C.L., Trinh, C.H., Rizkallah, P.J., Stockley, P.G., Phillips, S.E.V.

Description: 1.45 Ang Structure of STNV coat protein