6xe1 - Revision history

OCA at 14:51, 18 October 2023

OCA — Wed, 18 Oct 2023 14:51:08 GMT

←Older revision		Revision as of 14:51, 18 October 2023
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-	====	+	==Structure of SARS-CoV-2 spike protein receptor binding domain in complex with a potent neutralizing antibody, CV30 Fab==
-	<StructureSection load='6xe1' size='340' side='right'caption='[[6xe1]]' scene=''>	+	<StructureSection load='6xe1' size='340' side='right'caption='[[6xe1]], [[Resolution\|resolution]] 2.75Å' 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'>[[6xe1]] is a 3 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=6XE1 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6XE1 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=6xe1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xe1 OCA], [https://pdbe.org/6xe1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6xe1 RCSB], [https://www.ebi.ac.uk/pdbsum/6xe1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6xe1 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]] 2.75Å</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>, <scene name='pdbligand=PCA:PYROGLUTAMIC+ACID'>PCA</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=6xe1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xe1 OCA], [https://pdbe.org/6xe1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6xe1 RCSB], [https://www.ebi.ac.uk/pdbsum/6xe1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6xe1 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 ==
		+	SARS-CoV-2 is a betacoronavirus virus responsible for the COVID-19 pandemic. Here, we determined the X-ray crystal structure of a potent neutralizing monoclonal antibody, CV30, isolated from a patient infected with SARS-CoV-2, in complex with the receptor binding domain (RBD). The structure reveals CV30's epitope overlaps with the human ACE2 receptor binding site thus providing the structural basis for its neutralization by preventing ACE2 binding.
		+
		+	Structural basis for potent neutralization of SARS-CoV-2 and role of antibody affinity maturation.,Hurlburt NK, Wan YH, Stuart AB, Feng J, McGuire AT, Stamatatos L, Pancera M bioRxiv. 2020 Jun 12:2020.06.12.148692. doi: 10.1101/2020.06.12.148692. Preprint. PMID:32577631<ref>PMID:32577631</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6xe1" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[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: Hurlburt NK]]
		+	[[Category: Pancera M]]

OCA at 10:16, 13 April 2022

OCA — Wed, 13 Apr 2022 10:16:46 GMT

←Older revision		Revision as of 10:16, 13 April 2022
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	<StructureSection load='6xe1' size='340' side='right'caption='[[6xe1]]' scene=''>		<StructureSection load='6xe1' size='340' side='right'caption='[[6xe1]]' 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=6xe1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xe1 OCA], [~~http~~://pdbe.org/6xe1 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6xe1 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6xe1 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6xe1 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=6xe1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xe1 OCA], [https://pdbe.org/6xe1 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6xe1 RCSB], [https://www.ebi.ac.uk/pdbsum/6xe1 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6xe1 ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 11:38, 29 July 2020

OCA — Wed, 29 Jul 2020 11:38:38 GMT

←Older revision		Revision as of 11:38, 29 July 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6xe1 ~~is ON HOLD~~	+	====
-		+	<StructureSection load='6xe1' size='340' side='right'caption='[[6xe1]]' scene=''>
-	~~Authors~~: ~~Hurlburt, N~~.K.~~, Pancera, M~~.	+	== 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~~: ~~Structure of SARS-CoV~~-~~2 spike protein receptor binding domain in complex with a potent neutralizing antibody~~, ~~CV30 Fab~~	+	</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=6xe1 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6xe1 OCA], [http://pdbe.org/6xe1 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6xe1 RCSB], [http://www.ebi.ac.uk/pdbsum/6xe1 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6xe1 ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[Category: ~~Hurlburt, N.K~~]]	+	__TOC__
-	[[Category: ~~Pancera, M~~]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA: Protected "6xe1" [edit=sysop:move=sysop]

OCA — Wed, 17 Jun 2020 08:46:32 GMT

Protected "6xe1" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:46, 17 June 2020

OCA: New page: '''Unreleased structure''' The entry 6xe1 is ON HOLD Authors: Hurlburt, N.K., Pancera, M. Description: Structure of SARS-CoV-2 spike protein receptor binding domain in complex with a p...

OCA — Wed, 17 Jun 2020 08:46:31 GMT

New page: '''Unreleased structure''' The entry 6xe1 is ON HOLD Authors: Hurlburt, N.K., Pancera, M. Description: Structure of SARS-CoV-2 spike protein receptor binding domain in complex with a p...

New page

'''Unreleased structure'''

The entry 6xe1 is ON HOLD

Authors: Hurlburt, N.K., Pancera, M.

Description: Structure of SARS-CoV-2 spike protein receptor binding domain in complex with a potent neutralizing antibody, CV30 Fab
[[Category: Unreleased Structures]]
[[Category: Hurlburt, N.K]]
[[Category: Pancera, M]]