7jx3 - Revision history

OCA at 15:13, 18 October 2023

2023-10-18T15:13:20Z

←Older revision		Revision as of 15:13, 18 October 2023
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-	====	+	==Mapping neutralizing and immunodominant sites on the SARS-CoV-2 spike receptor-binding domain by structure-guided high-resolution serology==
-	<StructureSection load='7jx3' size='340' side='right'caption='[[7jx3]]' scene=''>	+	<StructureSection load='7jx3' size='340' side='right'caption='[[7jx3]], [[Resolution\|resolution]] 2.65Å' 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'>[[7jx3]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Severe_acute_respiratory_syndrome_coronavirus_2 Severe acute respiratory syndrome coronavirus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7JX3 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7JX3 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=7jx3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7jx3 OCA], [https://pdbe.org/7jx3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7jx3 RCSB], [https://www.ebi.ac.uk/pdbsum/7jx3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7jx3 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]] 2.65Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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=7jx3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7jx3 OCA], [https://pdbe.org/7jx3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7jx3 RCSB], [https://www.ebi.ac.uk/pdbsum/7jx3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7jx3 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://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 ==
		+	Analysis of the specificity and kinetics of neutralizing antibodies (nAbs) elicited by SARS-CoV-2 infection is crucial for understanding immune protection and identifying targets for vaccine design. In a cohort of 647 SARS-CoV-2-infected subjects, we found that both the magnitude of Ab responses to SARS-CoV-2 spike (S) and nucleoprotein and nAb titers correlate with clinical scores. The receptor-binding domain (RBD) is immunodominant and the target of 90% of the neutralizing activity present in SARS-CoV-2 immune sera. Whereas overall RBD-specific serum IgG titers waned with a half-life of 49 days, nAb titers and avidity increased over time for some individuals, consistent with affinity maturation. We structurally defined an RBD antigenic map and serologically quantified serum Abs specific for distinct RBD epitopes leading to the identification of two major receptor-binding motif antigenic sites. Our results explain the immunodominance of the receptor-binding motif and will guide the design of COVID-19 vaccines and therapeutics.
		+
		+	Mapping Neutralizing and Immunodominant Sites on the SARS-CoV-2 Spike Receptor-Binding Domain by Structure-Guided High-Resolution Serology.,Piccoli L, Park YJ, Tortorici MA, Czudnochowski N, Walls AC, Beltramello M, Silacci-Fregni C, Pinto D, Rosen LE, Bowen JE, Acton OJ, Jaconi S, Guarino B, Minola A, Zatta F, Sprugasci N, Bassi J, Peter A, De Marco A, Nix JC, Mele F, Jovic S, Rodriguez BF, Gupta SV, Jin F, Piumatti G, Lo Presti G, Pellanda AF, Biggiogero M, Tarkowski M, Pizzuto MS, Cameroni E, Havenar-Daughton C, Smithey M, Hong D, Lepori V, Albanese E, Ceschi A, Bernasconi E, Elzi L, Ferrari P, Garzoni C, Riva A, Snell G, Sallusto F, Fink K, Virgin HW, Lanzavecchia A, Corti D, Veesler D Cell. 2020 Sep 16. pii: S0092-8674(20)31234-4. doi: 10.1016/j.cell.2020.09.037. PMID:32991844<ref>PMID:32991844</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7jx3" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[Monoclonal Antibodies 3D structures\|Monoclonal Antibodies 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Severe acute respiratory syndrome coronavirus 2]]
		+	[[Category: Beltramello M]]
		+	[[Category: Cameroni E]]
		+	[[Category: Corti D]]
		+	[[Category: Czudnochowski N]]
		+	[[Category: Nix JC]]
		+	[[Category: Park YJ]]
		+	[[Category: Pinto D]]
		+	[[Category: Rosen LE]]
		+	[[Category: Snell G]]
		+	[[Category: Tortorici MA]]
		+	[[Category: Veesler D]]
		+	[[Category: Walls AC]]

OCA at 08:03, 27 January 2021

2021-01-27T08:03:17Z

←Older revision		Revision as of 08:03, 27 January 2021
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	<StructureSection load='7jx3' size='340' side='right'caption='[[7jx3]]' scene=''>		<StructureSection load='7jx3' size='340' side='right'caption='[[7jx3]]' 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 [~~http~~://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<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>
-	</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=7jx3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7jx3 OCA], [~~http~~://pdbe.org/7jx3 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=7jx3 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/7jx3 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=7jx3 ProSAT]</span></td></tr>	+	</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=7jx3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7jx3 OCA], [https://pdbe.org/7jx3 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7jx3 RCSB], [https://www.ebi.ac.uk/pdbsum/7jx3 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7jx3 ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 05:53, 14 October 2020

2020-10-14T05:53:09Z

←Older revision		Revision as of 05:53, 14 October 2020
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7jx3 ~~is ON HOLD~~	+	====
-		+	<StructureSection load='7jx3' size='340' side='right'caption='[[7jx3]]' scene=''>
-	~~Authors~~:	+	== 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 [http://proteopedia.org/fgij/fg.htm?mol= 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=7jx3 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7jx3 OCA], [http://pdbe.org/7jx3 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7jx3 RCSB], [http://www.ebi.ac.uk/pdbsum/7jx3 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7jx3 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA: Protected "7jx3" [edit=sysop:move=sysop]

2020-09-02T05:26:26Z

Protected "7jx3" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:26, 2 September 2020

OCA: New page: '''Unreleased structure''' The entry 7jx3 is ON HOLD Authors: Description: Category: Unreleased Structures

2020-09-02T05:26:24Z

New page: '''Unreleased structure''' The entry 7jx3 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7jx3 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]