7y0v - Revision history

OCA at 18:04, 29 November 2023

OCA — Wed, 29 Nov 2023 18:04:55 GMT

←Older revision		Revision as of 18:04, 29 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7y0v]] 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=7Y0V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7Y0V FirstGlance]. <br>		<table><tr><td colspan='2'>[[7y0v]] 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=7Y0V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7Y0V 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=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</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]] 2.48Å</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=FUC:ALPHA-L-FUCOSE'>FUC</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=7y0v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7y0v OCA], [https://pdbe.org/7y0v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7y0v RCSB], [https://www.ebi.ac.uk/pdbsum/7y0v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7y0v 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=7y0v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7y0v OCA], [https://pdbe.org/7y0v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7y0v RCSB], [https://www.ebi.ac.uk/pdbsum/7y0v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7y0v ProSAT]</span></td></tr>
	</table>		</table>

OCA at 20:39, 12 April 2023

OCA — Wed, 12 Apr 2023 20:39:30 GMT

←Older revision		Revision as of 20:39, 12 April 2023
Line 8:		Line 8:
	</table>		</table>
	== Function ==		== 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]	+	[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]
	== References ==		== References ==
	<references/>		<references/>

OCA at 06:20, 28 September 2022

OCA — Wed, 28 Sep 2022 06:20:31 GMT

←Older revision		Revision as of 06:20, 28 September 2022
Line 1:		Line 1:
-	'''Unreleased structure'''

-	The ~~entry~~ 7y0v is ~~ON HOLD until Paper Publication~~	+	==The co-crystal structure of BA.1-RBD with Fab-5549==
-		+	<StructureSection load='7y0v' size='340' side='right'caption='[[7y0v]], [[Resolution\|resolution]] 2.48Å' scene=''>
-	~~Authors~~: ~~Xiao~~, J.Y., ~~Zhang~~, Y.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[7y0v]] 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=7Y0V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7Y0V FirstGlance]. <br>
-	~~Description~~: ~~The co~~-~~crystal~~ structure of BA.1-~~RBD with Fab~~-~~5549~~	+	</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=FUC:ALPHA-L-FUCOSE'>FUC</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7y0v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7y0v OCA], [https://pdbe.org/7y0v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7y0v RCSB], [https://www.ebi.ac.uk/pdbsum/7y0v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7y0v ProSAT]</span></td></tr>
-	[[Category: ~~Zhang, Y~~]]	+	</table>
-	[[Category: Xiao~~, J.~~Y]]	+	== 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]
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Homo sapiens]]
		+	[[Category: Large Structures]]
		+	[[Category: Severe acute respiratory syndrome coronavirus 2]]
		+	[[Category: Xiao JY]]
		+	[[Category: Zhang Y]]

OCA at 03:57, 13 July 2022

OCA — Wed, 13 Jul 2022 03:57:55 GMT

←Older revision		Revision as of 03:57, 13 July 2022
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7y0v is ON HOLD	+	The entry 7y0v is ON HOLD until Paper Publication

	Authors: Xiao, J.Y., Zhang, Y.		Authors: Xiao, J.Y., Zhang, Y.

OCA: Protected "7y0v" [edit=sysop:move=sysop]

OCA — Wed, 15 Jun 2022 03:57:30 GMT

Protected "7y0v" [edit=sysop:move=sysop]

←Older revision

Revision as of 03:57, 15 June 2022

OCA: New page: '''Unreleased structure''' The entry 7y0v is ON HOLD Authors: Xiao, J.Y., Zhang, Y. Description: The co-crystal structure of BA.1-RBD with Fab-5549 Category: Unreleased Structures ...

OCA — Wed, 15 Jun 2022 03:57:29 GMT

New page: '''Unreleased structure''' The entry 7y0v is ON HOLD Authors: Xiao, J.Y., Zhang, Y. Description: The co-crystal structure of BA.1-RBD with Fab-5549 Category: Unreleased Structures ...

New page

'''Unreleased structure'''

The entry 7y0v is ON HOLD

Authors: Xiao, J.Y., Zhang, Y.

Description: The co-crystal structure of BA.1-RBD with Fab-5549
[[Category: Unreleased Structures]]
[[Category: Zhang, Y]]
[[Category: Xiao, J.Y]]