8fax - Revision history

OCA at 06:21, 19 July 2023

OCA — Wed, 19 Jul 2023 06:21:37 GMT

←Older revision		Revision as of 06:21, 19 July 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8fax]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Middle_East_respiratory_syndrome-related_coronavirus Middle East respiratory syndrome-related coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8FAX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8FAX FirstGlance]. <br>		<table><tr><td colspan='2'>[[8fax]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Middle_East_respiratory_syndrome-related_coronavirus Middle East respiratory syndrome-related coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8FAX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8FAX FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene></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]] 2.1Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=8fax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8fax OCA], [https://pdbe.org/8fax PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8fax RCSB], [https://www.ebi.ac.uk/pdbsum/8fax PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8fax ProSAT]</span></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=8fax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8fax OCA], [https://pdbe.org/8fax PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8fax RCSB], [https://www.ebi.ac.uk/pdbsum/8fax PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8fax ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:31, 3 May 2023

OCA — Wed, 03 May 2023 07:31:29 GMT

←Older revision		Revision as of 07:31, 3 May 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8fax is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Fab 1249A8-MERS Stem Helix Complex==
		+	<StructureSection load='8fax' size='340' side='right'caption='[[8fax]], [[Resolution\|resolution]] 2.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[8fax]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens] and [https://en.wikipedia.org/wiki/Middle_East_respiratory_syndrome-related_coronavirus Middle East respiratory syndrome-related coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8FAX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8FAX FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=8fax FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8fax OCA], [https://pdbe.org/8fax PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8fax RCSB], [https://www.ebi.ac.uk/pdbsum/8fax PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8fax ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/R9UCW7_MERS R9UCW7_MERS] Spike protein S1: attaches the virion to the cell membrane by interacting with host receptor, initiating the infection.[HAMAP-Rule:MF_04099] Spike protein S2': Acts as a viral fusion peptide which is unmasked following S2 cleavage occurring upon virus endocytosis.[HAMAP-Rule:MF_04099] Spike protein S2: 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]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Monoclonal antibodies that retain neutralizing activity against multiple coronavirus (CoV) lineages and variants of concern (VoC) must be developed to protect against future pandemics. These broadly neutralizing MAbs (BNMAbs) may be used as therapeutics and/or to assist in the rational design of vaccines that induce BNMAbs. 1249A8 is a BNMAb that targets the stem helix (SH) region of CoV spike (S) protein and neutralizes Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) original strain, delta, and omicron VoC, Severe Acute Respiratory Syndrome CoV (SARS-CoV), and Middle East Respiratory Syndrome CoV (MERS-CoV). To understand its mechanism of action, the crystal structure of 1249A8 bound to a MERS-CoV SH peptide was determined at 2.1 A resolution. BNMAb 1249A8 mimics the SARS-CoV-2 S loop residues 743-749, which interacts with the N-terminal end of the SH helix in the S post-fusion conformation. The conformation of 1249A8-bound SH is distinct from the SH conformation observed in the post-fusion SARS-CoV-2 S structure, suggesting 1249A8 disrupts the secondary structure and refolding events required for CoV post-fusion S to initiate membrane fusion and ultimately infection. This study provides novel insights into the neutralization mechanisms of SH-targeting CoV BNMAbs that may inform vaccine development and the design of optimal BNMAb therapeutics.

-	~~Authors: Deshpande~~, A., Schormann, N., Piepenbrink~~, M.S.~~, Martinez-Sobrido, L., Kobie, J.J.~~, Walter, M~~.R.	+	Structure and epitope of a neutralizing monoclonal antibody that targets the stem helix of beta coronaviruses.,Deshpande A, Schormann N, Piepenbrink MS, Martinez Sobrido L, Kobie JJ, Walter MR FEBS J. 2023 Apr 4. doi: 10.1111/febs.16777. PMID:37014961<ref>PMID:37014961</ref>

-	~~Description: Fab 1249A8~~-~~MERS Stem Helix Complex~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Martinez-Sobrido, L~~]]	+	<div class="pdbe-citations 8fax" style="background-color:#fffaf0;"></div>
-	[[Category: ~~Schormann, N~~]]	+	== References ==
-	[[Category: Deshpande, A]]	+	<references/>
-	[[Category: Kobie~~, J.J~~]]	+	__TOC__
-	[[Category: Piepenbrink~~, M.S~~]]	+	</StructureSection>
-	[[Category: Walter~~, M.R~~]]	+	[[Category: Homo sapiens]]
		+	[[Category: Large Structures]]
		+	[[Category: Middle East respiratory syndrome-related coronavirus]]
		+	[[Category: Deshpande A]]
		+	[[Category: Kobie JJ]]
		+	[[Category: Martinez-Sobrido L]]
		+	[[Category: Piepenbrink MS]]
		+	[[Category: Schormann N]]
		+	[[Category: Walter MR]]

OCA at 05:47, 11 January 2023

OCA — Wed, 11 Jan 2023 05:47:58 GMT

←Older revision		Revision as of 05:47, 11 January 2023
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Deshpande, A., Schormann, N., Piepenbrink, M.S., Martinez-Sobrido, L., Kobie, J.J., Walter, M.R.		Authors: Deshpande, A., Schormann, N., Piepenbrink, M.S., Martinez-Sobrido, L., Kobie, J.J., Walter, M.R.

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

OCA — Wed, 07 Dec 2022 05:37:51 GMT

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

←Older revision

Revision as of 05:37, 7 December 2022

OCA: New page: '''Unreleased structure''' The entry 8fax is ON HOLD Authors: Deshpande, A., Schormann, N., Piepenbrink, M.S., Martinez-Sobrido, L., Kobie, J.J., Walter, M.R. Description: Fab 1249A8-M...

OCA — Wed, 07 Dec 2022 05:37:49 GMT

New page: '''Unreleased structure''' The entry 8fax is ON HOLD Authors: Deshpande, A., Schormann, N., Piepenbrink, M.S., Martinez-Sobrido, L., Kobie, J.J., Walter, M.R. Description: Fab 1249A8-M...

New page

'''Unreleased structure'''

The entry 8fax is ON HOLD

Authors: Deshpande, A., Schormann, N., Piepenbrink, M.S., Martinez-Sobrido, L., Kobie, J.J., Walter, M.R.

Description: Fab 1249A8-MERS Stem Helix Complex
[[Category: Unreleased Structures]]
[[Category: Martinez-Sobrido, L]]
[[Category: Schormann, N]]
[[Category: Deshpande, A]]
[[Category: Kobie, J.J]]
[[Category: Piepenbrink, M.S]]
[[Category: Walter, M.R]]