5bkl - Revision history

OCA at 08:27, 27 September 2023

2023-09-27T08:27:31Z

←Older revision		Revision as of 08:27, 27 September 2023
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-	====	+	==Crystallographic structure of the cubic crystal form of STMV (77.9 degree rotation) grown from NaCl==
-	<StructureSection load='5bkl' size='340' side='right'caption='[[5bkl]]' scene=''>	+	<StructureSection load='5bkl' size='340' side='right'caption='[[5bkl]], [[Resolution\|resolution]] 2.94Å' 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= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5bkl]] is a 39 chain structure with sequence from [https://en.wikipedia.org/wiki/Satellite_tobacco_mosaic_virus Satellite tobacco mosaic virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BKL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5BKL FirstGlance]. <br>
-	</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=5bkl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bkl OCA], [https://pdbe.org/5bkl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5bkl RCSB], [https://www.ebi.ac.uk/pdbsum/5bkl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5bkl ProSAT]</span></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]] 2.94Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=5bkl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bkl OCA], [https://pdbe.org/5bkl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5bkl RCSB], [https://www.ebi.ac.uk/pdbsum/5bkl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5bkl ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/COAT_STMV COAT_STMV]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The structures of new crystal forms of Satellite tobacco mosaic virus (STMV) are described. These belong to space groups I2, P21212 (a low-resolution form), R3 (H3) and P23. The R3 crystals are 50%/50% twinned, as are two instances of the P23 crystals. The I2 and P21212 crystals were grown from ammonium sulfate solutions, as was one crystal in space group P23, while the R3 and the other P23 crystals were grown from sodium chloride, sodium bromide and sodium nitrate. The monoclinic and orthorhombic crystals have half a virus particle as the asymmetric unit, while the rhombohedral and cubic crystals have one third of a virus particle. RNA segments organized about the icosahedral twofold axes were present in crystals grown from ammonium sulfate and sodium chloride, as in the canonical I222 crystals (PDB entry 4oq8), but were not observed in crystals grown from sodium bromide and sodium nitrate. Bromide and nitrate ions generally replaced the RNA phosphates present in the I222 crystals, including the phosphates seen on fivefold axes, and were also found at threefold vertices in both the rhombohedral and cubic forms. An additional anion was also found on the fivefold axis 5 A from the first anion, and slightly outside the capsid in crystals grown from sodium chloride, sodium bromide and sodium nitrate, suggesting that the path along the symmetry axis might be an ion channel. The electron densities for RNA strands at individual icosahedral dyads, as well as at the amino-terminal peptides of protein subunits, exhibited a diversity of orientations, in particular the residues at the ends.
		+
		+	Structures of additional crystal forms of Satellite tobacco mosaic virus grown from a variety of salts.,McPherson A Acta Crystallogr F Struct Biol Commun. 2021 Dec 1;77(Pt 12):473-483. doi:, 10.1107/S2053230X21011547. Epub 2021 Nov 29. PMID:34866603<ref>PMID:34866603</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5bkl" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Satellite tobacco mosaic virus]]
		+	[[Category: McPherson A]]

OCA at 16:45, 15 December 2021

2021-12-15T16:45:53Z

←Older revision		Revision as of 16:45, 15 December 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 5bkl ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='5bkl' size='340' side='right'caption='[[5bkl]]' scene=''>
-	~~Authors~~: ~~McPherson, A~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~: ~~Crystallographic structure of the cubic crystal form of STMV (77~~.~~9 degree rotation) grown from NaCl~~	+	</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=5bkl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bkl OCA], [https://pdbe.org/5bkl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5bkl RCSB], [https://www.ebi.ac.uk/pdbsum/5bkl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5bkl ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
-	[[Category: ~~Mcpherson, A~~]]	+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 07:43, 26 May 2021

2021-05-26T07:43:47Z

←Older revision		Revision as of 07:43, 26 May 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5bkl is ON HOLD	+	The entry 5bkl is ON HOLD until Paper Publication

-	Authors: ~~McPherson, A.,~~ McPherson, A.	+	Authors: McPherson, A.

	Description: Crystallographic structure of the cubic crystal form of STMV (77.9 degree rotation) grown from NaCl		Description: Crystallographic structure of the cubic crystal form of STMV (77.9 degree rotation) grown from NaCl
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Mcpherson, A]]		[[Category: Mcpherson, A]]

OCA at 08:30, 19 May 2021

2021-05-19T08:30:49Z

←Older revision		Revision as of 08:30, 19 May 2021
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	The entry 5bkl is ON HOLD		The entry 5bkl is ON HOLD

-	Authors: McPherson, A.	+	Authors: McPherson, A., McPherson, A.

	Description: Crystallographic structure of the cubic crystal form of STMV (77.9 degree rotation) grown from NaCl		Description: Crystallographic structure of the cubic crystal form of STMV (77.9 degree rotation) grown from NaCl
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Mcpherson, A]]		[[Category: Mcpherson, A]]

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

2021-03-31T09:10:57Z

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

←Older revision

Revision as of 09:10, 31 March 2021

OCA: New page: '''Unreleased structure''' The entry 5bkl is ON HOLD Authors: McPherson, A. Description: Crystallographic structure of the cubic crystal form of STMV (77.9 degree rotation) grown from ...

2021-03-31T09:10:56Z

New page: '''Unreleased structure''' The entry 5bkl is ON HOLD Authors: McPherson, A. Description: Crystallographic structure of the cubic crystal form of STMV (77.9 degree rotation) grown from ...

New page

'''Unreleased structure'''

The entry 5bkl is ON HOLD

Authors: McPherson, A.

Description: Crystallographic structure of the cubic crystal form of STMV (77.9 degree rotation) grown from NaCl
[[Category: Unreleased Structures]]
[[Category: Mcpherson, A]]