OCA at 08:12, 7 December 2022

OCA — Wed, 07 Dec 2022 08:12:18 GMT

←Older revision		Revision as of 08:12, 7 December 2022
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-	'''Unreleased structure'''

-	~~The entry~~ 7tyz is ~~ON HOLD~~	+	==Cryo-EM structure of SARS-CoV-2 spike in complex with FSR22, an anti-SARS-CoV-2 DARPin==
		+	<StructureSection load='7tyz' size='340' side='right'caption='[[7tyz]], [[Resolution\|resolution]] 3.51Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[7tyz]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_phage_EcSzw-2 Escherichia phage EcSzw-2] 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=7TYZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7TYZ FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=MAN:ALPHA-D-MANNOSE'>MAN</scene>, <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=7tyz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7tyz OCA], [https://pdbe.org/7tyz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7tyz RCSB], [https://www.ebi.ac.uk/pdbsum/7tyz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7tyz 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 ==
		+	We report the engineering and selection of two synthetic proteins-FSR16m and FSR22-for the possible treatment of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection. FSR16m and FSR22 are trimeric proteins composed of DARPin SR16m or SR22 fused with a T4 foldon. Despite selection by a spike protein from a now historical SARS-CoV-2 strain, FSR16m and FSR22 exhibit broad-spectrum neutralization of SARS-CoV-2 strains, inhibiting authentic B.1.351, B.1.617.2 and BA.1.1 viruses, with respective IC(50) values of 3.4, 2.2 and 7.4 ng ml(-1) for FSR16m. Cryo-EM structures revealed that these DARPins recognize a region of the receptor-binding domain (residues 456, 475, 486, 487 and 489) overlapping a critical portion of the angiotensin-converting enzyme 2 (ACE2)-binding surface. K18-hACE2 transgenic mice inoculated with B.1.617.2 and receiving intranasally administered FSR16m showed less weight loss and 10-100-fold lower viral burden in upper and lower respiratory tracts. The strong and broad neutralization potency makes FSR16m and FSR22 promising candidates for the prevention and treatment of infection by SARS-CoV-2.

-	~~Authors:~~ Kwon, Y~~.D.~~, ~~Gorman~~, J., Kwong, P.D.	+	A potent and broad neutralization of SARS-CoV-2 variants of concern by DARPins.,Chonira V, Kwon YD, Gorman J, Case JB, Ku Z, Simeon R, Casner RG, Harris DR, Olia AS, Stephens T, Shapiro L, Bender MF, Boyd H, Teng IT, Tsybovsky Y, Krammer F, Zhang N, Diamond MS, Kwong PD, An Z, Chen Z Nat Chem Biol. 2022 Nov 21. doi: 10.1038/s41589-022-01193-2. PMID:36411391<ref>PMID:36411391</ref>

-	~~Description: Cryo-EM structure~~ of ~~SARS~~-~~CoV~~-~~2 spike in complex with FSR22, an anti-SARS-CoV~~-2 ~~DARPin~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased~~ Structures]]	+	</div>
-	[[Category: ~~Kwon, Y.D~~]]	+	<div class="pdbe-citations 7tyz" style="background-color:#fffaf0;"></div>
-	[[Category: Gorman, J]]	+	== References ==
-	[[Category: Kwong~~, P.D~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Escherichia phage EcSzw-2]]
		+	[[Category: Large Structures]]
		+	[[Category: Severe acute respiratory syndrome coronavirus 2]]
		+	[[Category: Gorman J]]
		+	[[Category: Kwon YD]]
		+	[[Category: Kwong PD]]

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

OCA — Wed, 23 Feb 2022 06:33:39 GMT

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

←Older revision

Revision as of 06:33, 23 February 2022

OCA: New page: '''Unreleased structure''' The entry 7tyz is ON HOLD Authors: Kwon, Y.D., Gorman, J., Kwong, P.D. Description: Cryo-EM structure of SARS-CoV-2 spike in complex with FSR22, an anti-SARS...

OCA — Wed, 23 Feb 2022 06:33:38 GMT

New page: '''Unreleased structure''' The entry 7tyz is ON HOLD Authors: Kwon, Y.D., Gorman, J., Kwong, P.D. Description: Cryo-EM structure of SARS-CoV-2 spike in complex with FSR22, an anti-SARS...

New page

'''Unreleased structure'''

The entry 7tyz is ON HOLD

Authors: Kwon, Y.D., Gorman, J., Kwong, P.D.

Description: Cryo-EM structure of SARS-CoV-2 spike in complex with FSR22, an anti-SARS-CoV-2 DARPin
[[Category: Unreleased Structures]]
[[Category: Kwon, Y.D]]
[[Category: Gorman, J]]
[[Category: Kwong, P.D]]

7tyz - Revision history

OCA at 08:12, 7 December 2022

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

OCA: New page: '''Unreleased structure''' The entry 7tyz is ON HOLD Authors: Kwon, Y.D., Gorman, J., Kwong, P.D. Description: Cryo-EM structure of SARS-CoV-2 spike in complex with FSR22, an anti-SARS...