OCA at 07:09, 25 October 2023

OCA — Wed, 25 Oct 2023 07:09:07 GMT

←Older revision		Revision as of 07:09, 25 October 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8t22 is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Cryo-EM structure of mink variant Y453F trimeric spike protein bound to one mink ACE2 receptors at downRBD conformation==
		+	<StructureSection load='8t22' size='340' side='right'caption='[[8t22]], [[Resolution\|resolution]] 3.83Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8t22]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Neogale_vison Neogale vison] 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=8T22 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8T22 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]] 3.83Å</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=8t22 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8t22 OCA], [https://pdbe.org/8t22 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8t22 RCSB], [https://www.ebi.ac.uk/pdbsum/8t22 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8t22 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 ==
		+	Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) enters the host cell by binding to angiotensin-converting enzyme 2 (ACE2). While evolutionarily conserved, ACE2 receptors differ across various species and differential interactions with Spike (S) glycoproteins of SARS-CoV-2 viruses impact species specificity. Reverse zoonoses led to SARS-CoV-2 outbreaks on multiple American mink (Mustela vison) farms during the pandemic and gave rise to mink-associated S substitutions known for transmissibility between mink and zoonotic transmission to humans. In this study, we used bio-layer interferometry (BLI) to discern the differences in binding affinity between multiple human and mink-derived S glycoproteins of SARS-CoV-2 and their respective ACE2 receptors. Further, we conducted a structural analysis of a mink variant S glycoprotein and American mink ACE2 (mvACE2) using cryo-electron microscopy (cryo-EM), revealing four distinct conformations. We discovered a novel intermediary conformation where the mvACE2 receptor is bound to the receptor-binding domain (RBD) of the S glycoprotein in a "down" position, approximately 34 degrees lower than previously reported "up" RBD. Finally, we compared residue interactions in the S-ACE2 complex interface of S glycoprotein conformations with varying RBD orientations. These findings provide valuable insights into the molecular mechanisms of SARS-CoV-2 entry.

-	~~Authors:~~ Ahn, H~~.M.~~, Calderon~~, B.~~, Fan, X., Gao, Y., Horgan, N., ~~Zhou~~, B., Liang, B.	+	Structural basis of the American mink ACE2 binding by Y453F trimeric spike glycoproteins of SARS-CoV-2.,Ahn H, Calderon BM, Fan X, Gao Y, Horgan NL, Jiang N, Blohm DS, Hossain J, Rayyan NWK, Osman SH, Lin X, Currier M, Steel J, Wentworth DE, Zhou B, Liang B J Med Virol. 2023 Oct;95(10):e29163. doi: 10.1002/jmv.29163. PMID:37842796<ref>PMID:37842796</ref>

-	~~Description: Cryo-EM structure~~ of ~~mink variant Y453F trimeric spike protein bound to one mink ACE2 receptors at downRBD conformation~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: ~~Zhou, B~~]]	+	<div class="pdbe-citations 8t22" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Gao, Y~~]]	+	== References ==
-	[[Category: Calderon, B]]	+	<references/>
-	[[Category: ~~Horgan, N~~]]	+	__TOC__
-	[[Category: ~~Liang, B~~]]	+	</StructureSection>
-	[[Category: ~~Fan, X~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Ahn, H.M~~]]	+	[[Category: Neogale vison]]
		+	[[Category: Severe acute respiratory syndrome coronavirus 2]]
		+	[[Category: Ahn HM]]
		+	[[Category: Calderon B]]
		+	[[Category: Fan X]]
		+	[[Category: Gao Y]]
		+	[[Category: Horgan N]]
		+	[[Category: Liang B]]
		+	[[Category: Zhou B]]

OCA at 04:31, 12 July 2023

OCA — Wed, 12 Jul 2023 04:31:47 GMT

←Older revision		Revision as of 04:31, 12 July 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8t22 is ON HOLD	+	The entry 8t22 is ON HOLD until Paper Publication

	Authors: Ahn, H.M., Calderon, B., Fan, X., Gao, Y., Horgan, N., Zhou, B., Liang, B.		Authors: Ahn, H.M., Calderon, B., Fan, X., Gao, Y., Horgan, N., Zhou, B., Liang, B.
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	[[Category: Zhou, B]]		[[Category: Zhou, B]]
	[[Category: Gao, Y]]		[[Category: Gao, Y]]
-	[[Category: Horgan, N]]
	[[Category: Calderon, B]]		[[Category: Calderon, B]]
		+	[[Category: Horgan, N]]
	[[Category: Liang, B]]		[[Category: Liang, B]]
	[[Category: Fan, X]]		[[Category: Fan, X]]
	[[Category: Ahn, H.M]]		[[Category: Ahn, H.M]]

OCA: Protected "8t22" [edit=sysop:move=sysop]

OCA — Wed, 14 Jun 2023 06:51:30 GMT

Protected "8t22" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:51, 14 June 2023

OCA: New page: '''Unreleased structure''' The entry 8t22 is ON HOLD Authors: Ahn, H.M., Calderon, B., Fan, X., Gao, Y., Horgan, N., Zhou, B., Liang, B. Description: Cryo-EM structure of mink variant ...

OCA — Wed, 14 Jun 2023 06:51:29 GMT

New page: '''Unreleased structure''' The entry 8t22 is ON HOLD Authors: Ahn, H.M., Calderon, B., Fan, X., Gao, Y., Horgan, N., Zhou, B., Liang, B. Description: Cryo-EM structure of mink variant ...

New page

'''Unreleased structure'''

The entry 8t22 is ON HOLD

Authors: Ahn, H.M., Calderon, B., Fan, X., Gao, Y., Horgan, N., Zhou, B., Liang, B.

Description: Cryo-EM structure of mink variant Y453F trimeric spike protein bound to one mink ACE2 receptors at downRBD conformation
[[Category: Unreleased Structures]]
[[Category: Zhou, B]]
[[Category: Gao, Y]]
[[Category: Horgan, N]]
[[Category: Calderon, B]]
[[Category: Liang, B]]
[[Category: Fan, X]]
[[Category: Ahn, H.M]]

8t22 - Revision history

OCA at 07:09, 25 October 2023

OCA at 04:31, 12 July 2023

OCA: Protected "8t22" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8t22 is ON HOLD Authors: Ahn, H.M., Calderon, B., Fan, X., Gao, Y., Horgan, N., Zhou, B., Liang, B. Description: Cryo-EM structure of mink variant ...