OCA at 11:25, 24 January 2024

2024-01-24T11:25:51Z

←Older revision		Revision as of 11:25, 24 January 2024
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-	'''Unreleased structure'''

-	~~The entry~~ 8g75 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==SARS-CoV-2 spike/Nb4 complex with 2 RBDs up and 3 Nb4 bound==
		+	<StructureSection load='8g75' size='340' side='right'caption='[[8g75]], [[Resolution\|resolution]] 3.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8g75]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Severe_acute_respiratory_syndrome_coronavirus_2 Severe acute respiratory syndrome coronavirus 2] and [https://en.wikipedia.org/wiki/Vicugna_pacos Vicugna pacos]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8G75 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8G75 FirstGlance]. <br>
		+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.4Å</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=8g75 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8g75 OCA], [https://pdbe.org/8g75 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8g75 RCSB], [https://www.ebi.ac.uk/pdbsum/8g75 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8g75 ProSAT]</span></td></tr>
		+	</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 ==
		+	The COVID-19 pandemic exposed limitations of conventional antibodies as therapeutics, including high cost, limited potency, ineffectiveness against new viral variants, and primary reliance on injection-only delivery. Nanobodies are single-domain antibodies with therapeutic potentials. We discovered three anti-SARS-CoV-2 nanobodies, named Nanosota-2, -3, and -4, from an immunized alpaca. Nanosota-2 is super potent against prototypic SARS-CoV-2, Nanosota-3 is highly potent against the omicron variant, and Nanosota-4 is effective against both SARS-CoV-1 and SARS-CoV-2. In addition to their super potency and combined broad antiviral spectrum, these nanobodies are cost-effective, can be easily adapted to new viral variants through phage display, and can potentially be administered as inhalers. The Nanosota series are powerful therapeutic candidates to combat circulating SARS-CoV-2 and prepare for possible future coronavirus pandemics.

-	~~Authors~~:	+	Discovery of Nanosota-2, -3, and -4 as super potent and broad-spectrum therapeutic nanobody candidates against COVID-19.,Ye G, Pan R, Bu F, Zheng J, Mendoza A, Wen W, Du L, Spiller B, Wadzinski BE, Liu B, Perlman S, Li F J Virol. 2023 Nov 30;97(11):e0144823. doi: 10.1128/jvi.01448-23. Epub 2023 Oct , 19. PMID:37855638<ref>PMID:37855638</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
		+	<div class="pdbe-citations 8g75" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Severe acute respiratory syndrome coronavirus 2]]
		+	[[Category: Vicugna pacos]]
		+	[[Category: Bu F]]
		+	[[Category: Li F]]
		+	[[Category: Liu B]]
		+	[[Category: Ye G]]

OCA at 05:26, 18 May 2023

2023-05-18T05:26:33Z

←Older revision		Revision as of 05:26, 18 May 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8g75 is ON HOLD	+	The entry 8g75 is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "8g75" [edit=sysop:move=sysop]

2023-02-22T10:25:53Z

Protected "8g75" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:25, 22 February 2023

OCA: New page: '''Unreleased structure''' The entry 8g75 is ON HOLD Authors: Description: Category: Unreleased Structures

2023-02-22T10:25:52Z

New page: '''Unreleased structure''' The entry 8g75 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 8g75 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

8g75 - Revision history

OCA at 11:25, 24 January 2024

OCA at 05:26, 18 May 2023

OCA: Protected "8g75" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8g75 is ON HOLD Authors: Description: Category: Unreleased Structures