OCA at 09:56, 18 November 2020

2020-11-18T09:56:20Z

←Older revision		Revision as of 09:56, 18 November 2020
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	==SARS CoV-2 Spike protein, Closed conformation, C3 symmetry==		==SARS CoV-2 Spike protein, Closed conformation, C3 symmetry==
-	<StructureSection load='6zb5' size='340' side='right'caption='[[6zb5]]' scene=''>	+	<StructureSection load='6zb5' size='340' side='right'caption='[[6zb5]], [[Resolution\|resolution]] 2.85Å' 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=6ZB5 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ZB5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6zb5]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/2019-ncov 2019-ncov]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZB5 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ZB5 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=6zb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zb5 OCA], [http://pdbe.org/6zb5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zb5 RCSB], [http://www.ebi.ac.uk/pdbsum/6zb5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zb5 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=EIC:LINOLEIC+ACID'>EIC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S, 2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=2697049 2019-nCoV])</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=6zb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zb5 OCA], [http://pdbe.org/6zb5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zb5 RCSB], [http://www.ebi.ac.uk/pdbsum/6zb5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zb5 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SPIKE_SARS2 SPIKE_SARS2]] attaches the virion to the cell membrane by interacting with host receptor, initiating the infection (By similarity). Binding to human ACE2 receptor and internalization of the virus into the endosomes of the host cell induces conformational changes in the Spike glycoprotein (PubMed:32142651, PubMed:32075877, PubMed:32155444). Uses also human TMPRSS2 for priming in human lung cells which is an essential step for viral entry (PubMed:32142651). Proteolysis by cathepsin CTSL may unmask the fusion peptide of S2 and activate membranes fusion within endosomes.[HAMAP-Rule:MF_04099]<ref>PMID:32075877</ref> <ref>PMID:32142651</ref> <ref>PMID:32155444</ref> mediates fusion of the virion and cellular membranes by acting as a class I viral fusion protein. Under the current model, the protein has at least three conformational states: pre-fusion native state, pre-hairpin intermediate state, and post-fusion hairpin state. During viral and target cell membrane fusion, the coiled coil regions (heptad repeats) assume a trimer-of-hairpins structure, positioning the fusion peptide in close proximity to the C-terminal region of the ectodomain. The formation of this structure appears to drive apposition and subsequent fusion of viral and target cell membranes.[HAMAP-Rule:MF_04099] Acts as a viral fusion peptide which is unmasked following S2 cleavage occurring upon virus endocytosis.[HAMAP-Rule:MF_04099]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	COVID-19, caused by severe acute respiratory syndrome-coronavirus-2 (SARS-CoV-2), represents a global crisis. Key to SARS-CoV-2 therapeutic development is unraveling the mechanisms driving high infectivity, broad tissue tropism and severe pathology. Our 2.85 A cryo-EM structure of SARS-CoV-2 spike (S) glycoprotein reveals that the receptor binding domains (RBDs) tightly bind the essential free fatty acid (FFA) linoleic acid (LA) in three composite binding pockets. The pocket also appears to be present in the highly pathogenic coronaviruses SARS-CoV and MERS-CoV. LA binding stabilizes a locked S conformation giving rise to reduced ACE2 interaction in vitro. In human cells, LA supplementation synergizes with the COVID-19 drug remdesivir, suppressing SARS-CoV-2 replication. Our structure directly links LA and S, setting the stage for intervention strategies targeting LA binding by SARS-CoV-2.
		+
		+	Free fatty acid binding pocket in the locked structure of SARS-CoV-2 spike protein.,Toelzer C, Gupta K, Yadav SKN, Borucu U, Davidson AD, Kavanagh Williamson M, Shoemark DK, Garzoni F, Staufer O, Milligan R, Capin J, Mulholland AJ, Spatz J, Fitzgerald D, Berger I, Schaffitzel C Science. 2020 Sep 21. pii: science.abd3255. doi: 10.1126/science.abd3255. PMID:32958580<ref>PMID:32958580</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6zb5" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: 2019-ncov]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Berger I]]	+	[[Category: Berger, I]]
-	[[Category: Burucu U]]	+	[[Category: Burucu, U]]
-	[[Category: Gupta K]]	+	[[Category: Gupta, K]]
-	[[Category: Schaffitzel C]]	+	[[Category: Schaffitzel, C]]
-	[[Category: Toelzer C]]	+	[[Category: Toelzer, C]]
-	[[Category: Yadav ~~SKN~~]]	+	[[Category: Yadav, S K.N]]
		+	[[Category: Covid]]
		+	[[Category: Linoleic acid]]
		+	[[Category: Sars-cov2]]
		+	[[Category: Spike]]
		+	[[Category: Viral protein]]

OCA at 07:12, 30 September 2020

2020-09-30T07:12:15Z

←Older revision		Revision as of 07:12, 30 September 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6zb5 is ~~ON HOLD until Paper Publication~~	+	==SARS CoV-2 Spike protein, Closed conformation, C3 symmetry==
-		+	<StructureSection load='6zb5' size='340' side='right'caption='[[6zb5]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6ZB5 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6ZB5 FirstGlance]. <br>
-	~~Description~~:	+	</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=6zb5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6zb5 OCA], [http://pdbe.org/6zb5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6zb5 RCSB], [http://www.ebi.ac.uk/pdbsum/6zb5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6zb5 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Berger I]]
		+	[[Category: Burucu U]]
		+	[[Category: Gupta K]]
		+	[[Category: Schaffitzel C]]
		+	[[Category: Toelzer C]]
		+	[[Category: Yadav SKN]]

OCA at 08:34, 23 September 2020

2020-09-23T08:34:08Z

←Older revision		Revision as of 08:34, 23 September 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6zb5 is ON HOLD	+	The entry 6zb5 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA at 09:07, 26 August 2020

2020-08-26T09:07:32Z

←Older revision		Revision as of 09:07, 26 August 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6zb5 is ON HOLD ~~until Paper Publication~~	+	The entry 6zb5 is ON HOLD

	Authors:		Authors:

OCA at 07:50, 22 July 2020

2020-07-22T07:50:59Z

←Older revision		Revision as of 07:50, 22 July 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6zb5 is ON HOLD	+	The entry 6zb5 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "6zb5" [edit=sysop:move=sysop]

2020-06-17T08:52:50Z

Protected "6zb5" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:52, 17 June 2020

OCA: New page: '''Unreleased structure''' The entry 6zb5 is ON HOLD Authors: Description: Category: Unreleased Structures

2020-06-17T08:52:48Z

New page: '''Unreleased structure''' The entry 6zb5 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6zb5 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]