4y5z - Revision history

OCA at 15:33, 8 November 2023

OCA — Wed, 08 Nov 2023 15:33:55 GMT

←Older revision		Revision as of 15:33, 8 November 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4y5z]] is a 60 chain structure with sequence from [https://en.wikipedia.org/wiki/Sesbania_mosaic_virus Sesbania mosaic virus] and [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_NCTC_8325 Staphylococcus aureus subsp. aureus NCTC 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y5Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y5Z FirstGlance]. <br>		<table><tr><td colspan='2'>[[4y5z]] is a 60 chain structure with sequence from [https://en.wikipedia.org/wiki/Sesbania_mosaic_virus Sesbania mosaic virus] and [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_NCTC_8325 Staphylococcus aureus subsp. aureus NCTC 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y5Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y5Z FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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]] 2.95Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=4y5z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y5z OCA], [https://pdbe.org/4y5z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y5z RCSB], [https://www.ebi.ac.uk/pdbsum/4y5z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y5z 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=4y5z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y5z OCA], [https://pdbe.org/4y5z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y5z RCSB], [https://www.ebi.ac.uk/pdbsum/4y5z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y5z ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:59, 3 May 2023

OCA — Wed, 03 May 2023 07:59:54 GMT

←Older revision		Revision as of 07:59, 3 May 2023
Line 3:		Line 3:
	<StructureSection load='4y5z' size='340' side='right'caption='[[4y5z]], [[Resolution\|resolution]] 2.95Å' scene=''>		<StructureSection load='4y5z' size='340' side='right'caption='[[4y5z]], [[Resolution\|resolution]] 2.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4y5z]] is a 60 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Sesbania_mosaic_virus Sesbania mosaic virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y5Z OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4Y5Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4y5z]] is a 60 chain structure with sequence from [https://en.wikipedia.org/wiki/Sesbania_mosaic_virus Sesbania mosaic virus] and [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_NCTC_8325 Staphylococcus aureus subsp. aureus NCTC 8325]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y5Z OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4Y5Z FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spa, SAOUHSC_00069 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=12558 Sesbania mosaic virus])</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=4y5z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y5z OCA], [https://pdbe.org/4y5z PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4y5z RCSB], [https://www.ebi.ac.uk/pdbsum/4y5z PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4y5z 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=4y5z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y5z OCA], [~~http~~://pdbe.org/4y5z PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4y5z RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4y5z PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4y5z ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/SPA_STAA8 SPA_STAA8] [https://www.uniprot.org/uniprot/Q9EB06_9VIRU Q9EB06_9VIRU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 23:		Line 24:
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Sesbania mosaic virus]]		[[Category: Sesbania mosaic virus]]
-	[[Category: ~~Gulati, A]]~~	+	[[Category: Staphylococcus aureus subsp. aureus NCTC 8325]]
-	~~[[Category: Murthy, M R~~.N]]	+	[[Category: Gulati A]]
-	[[Category: ~~Chimeric vlp~~]]	+	[[Category: Murthy MRN]]
-	[[Category: ~~Coat protein]]~~	+
-	~~[[Category: In vitro assembly]]~~	+
-	~~[[Category: Virus~~]]	+

OCA at 00:21, 6 June 2019

OCA — Thu, 06 Jun 2019 00:21:50 GMT

←Older revision		Revision as of 00:21, 6 June 2019
Line 1:		Line 1:
		+
	==T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)==		==T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)==
-	<StructureSection load='4y5z' size='340' side='right' caption='[[4y5z]], [[Resolution\|resolution]] 2.95Å' scene=''>	+	<StructureSection load='4y5z' size='340' side='right'caption='[[4y5z]], [[Resolution\|resolution]] 2.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4y5z]] is a 60 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y5Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y5Z FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4y5z]] is a 60 chain structure with sequence from [http://en.wikipedia.org/wiki/Sesbania_mosaic_virus Sesbania mosaic virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y5Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y5Z FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4y5z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y5z OCA], [http://pdbe.org/4y5z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y5z RCSB], [http://www.ebi.ac.uk/pdbsum/4y5z PDBsum]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">spa, SAOUHSC_00069 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=12558 Sesbania mosaic virus])</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=4y5z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y5z OCA], [http://pdbe.org/4y5z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y5z RCSB], [http://www.ebi.ac.uk/pdbsum/4y5z PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4y5z ProSAT]</span></td></tr>
	</table>		</table>
-	{{Large structure}}
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Sesbania mosaic virus]]
	[[Category: Gulati, A]]		[[Category: Gulati, A]]
	[[Category: Murthy, M R.N]]		[[Category: Murthy, M R.N]]

OCA at 17:01, 20 January 2016

OCA — Wed, 20 Jan 2016 17:01:57 GMT

←Older revision		Revision as of 17:01, 20 January 2016
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)==
		+	<StructureSection load='4y5z' size='340' side='right' caption='[[4y5z]], [[Resolution\|resolution]] 2.95Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4y5z]] is a 60 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4Y5Z OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4Y5Z FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><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://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4y5z FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4y5z OCA], [http://pdbe.org/4y5z PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4y5z RCSB], [http://www.ebi.ac.uk/pdbsum/4y5z PDBsum]</span></td></tr>
		+	</table>
		+	{{Large structure}}
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The capsid protein (CP) of Sesbania mosaic virus (SeMV, a T=3 plant virus) consists of a disordered N-terminal R-domain and an ordered S-domain. Removal of the R-domain results in the formation of T=1 particles. In the current study, the R-domain was replaced with unrelated polypeptides of similar lengths: the B-domain of Staphylococcus aureus SpA, and SeMV encoded polypeptides P8 and P10. The chimeric proteins contained T=3 or larger virus-like particles (VLPs) and could not be crystallized. The presence of metal ions during purification resulted in a large number of heterogeneous nucleoprotein complexes. N65-B (R domain replaced with B domain) could also be purified in a dimeric form. Its crystal structure revealed T=1 particles devoid of metal ions and the B-domain was disordered. However, the B-domain was functional in N65-B VLPs, suggesting possible biotechnological applications. These studies illustrate the importance of N-terminal residues, metal ions and robustness of the assembly process.

-	~~The entry 4y5z is ON HOLD until Paper Publication~~	+	Structural studies on chimeric Sesbania mosaic virus coat protein: Revisiting SeMV assembly.,Gulati A, Murthy A, Abraham A, Mohan K, Natraj U, Savithri HS, Murthy MR Virology. 2015 Dec 17;489:34-43. doi: 10.1016/j.virol.2015.11.029. PMID:26704627<ref>PMID:26704627</ref>

-	~~Authors: Gulati~~, A.~~, Murthy, M~~.~~R.N~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description: T~~=~~1 capsid structure of SeMV Ndel65CP fused with B~~-~~domain of S. aureus protein SpA at the N~~-~~terminus (P1 crystal form)~~	+	<div class="pdbe-citations 4y5z" style="background-color:#fffaf0;"></div>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Gulati, A]]		[[Category: Gulati, A]]
-	[[Category: Murthy, M.R.N]]	+	[[Category: Murthy, M R.N]]
		+	[[Category: Chimeric vlp]]
		+	[[Category: Coat protein]]
		+	[[Category: In vitro assembly]]
		+	[[Category: Virus]]

OCA at 23:28, 30 November 2015

OCA — Mon, 30 Nov 2015 23:28:10 GMT

←Older revision		Revision as of 23:28, 30 November 2015
Line 7:		Line 7:
	Description: T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)		Description: T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Murthy, M.R.N]]
	[[Category: Gulati, A]]		[[Category: Gulati, A]]
		+	[[Category: Murthy, M.R.N]]

OCA at 12:09, 26 March 2015

OCA — Thu, 26 Mar 2015 12:09:59 GMT

←Older revision		Revision as of 12:09, 26 March 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4y5z is ON HOLD	+	The entry 4y5z is ON HOLD until Paper Publication

	Authors: Gulati, A., Murthy, M.R.N.		Authors: Gulati, A., Murthy, M.R.N.

OCA at 10:19, 11 March 2015

OCA — Wed, 11 Mar 2015 10:19:23 GMT

←Older revision		Revision as of 10:19, 11 March 2015
Line 5:		Line 5:
	Authors: Gulati, A., Murthy, M.R.N.		Authors: Gulati, A., Murthy, M.R.N.

-	Description: ~~Structure~~ of SeMV ~~Ndel65 coat protein~~ fused with S. aureus ~~Z-domain~~ at the N-terminus	+	Description: T=1 capsid structure of SeMV Ndel65CP fused with B-domain of S. aureus protein SpA at the N-terminus (P1 crystal form)
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Murthy, M.R.N]]		[[Category: Murthy, M.R.N]]
	[[Category: Gulati, A]]		[[Category: Gulati, A]]

OCA: Protected "4y5z" [edit=sysop:move=sysop]

OCA — Wed, 18 Feb 2015 12:04:22 GMT

Protected "4y5z" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:04, 18 February 2015

OCA: New page: '''Unreleased structure''' The entry 4y5z is ON HOLD Authors: Gulati, A., Murthy, M.R.N. Description: Structure of SeMV Ndel65 coat protein fused with S. aureus Z-domain at the N-termi...

OCA — Wed, 18 Feb 2015 12:04:21 GMT

New page: '''Unreleased structure''' The entry 4y5z is ON HOLD Authors: Gulati, A., Murthy, M.R.N. Description: Structure of SeMV Ndel65 coat protein fused with S. aureus Z-domain at the N-termi...

New page

'''Unreleased structure'''

The entry 4y5z is ON HOLD

Authors: Gulati, A., Murthy, M.R.N.

Description: Structure of SeMV Ndel65 coat protein fused with S. aureus Z-domain at the N-terminus
[[Category: Unreleased Structures]]
[[Category: Murthy, M.R.N]]
[[Category: Gulati, A]]