8dtk - Revision history

OCA at 13:10, 1 March 2024

2024-03-01T13:10:21Z

←Older revision		Revision as of 13:10, 1 March 2024
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	== 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]
		+
		+	==See Also==
		+	*[[Spike protein 3D structures\|Spike protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>

OCA at 10:37, 2 August 2023

2023-08-02T10:37:05Z

←Older revision		Revision as of 10:37, 2 August 2023
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-	'''Unreleased structure'''

-	~~The entry 8dtk is ON HOLD until Paper Publication~~	+	==Structure of RBD directed antibody DH1047 in complex with SARS-CoV-2 spike: Local refinement of RBD-Fab interace==
-		+	<StructureSection load='8dtk' size='340' side='right'caption='[[8dtk]], [[Resolution\|resolution]] 3.77Å' scene=''>
-	~~Authors: May, A.J., Manne, K., Acharya, P.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[8dtk]] 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=8DTK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8DTK FirstGlance]. <br>
-	~~Description:~~ Structure of RBD directed antibody DH1047 in complex with SARS-CoV-2 spike: Local refinement of RBD-Fab interace	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.77Å</td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<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>
-	[[Category: Acharya, P]]	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=8dtk FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8dtk OCA], [https://pdbe.org/8dtk PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8dtk RCSB], [https://www.ebi.ac.uk/pdbsum/8dtk PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8dtk ProSAT]</span></td></tr>
-	[[Category: Manne, K]]	+	</table>
-	[[Category: May~~, A.J~~]]	+	== 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: Acharya P]]
		+	[[Category: Manne K]]
		+	[[Category: May AJ]]

OCA at 04:04, 18 August 2022

2022-08-18T04:04:20Z

←Older revision		Revision as of 04:04, 18 August 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: May, A.J., Manne, K., Acharya, P.		Authors: May, A.J., Manne, K., Acharya, P.
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	Description: Structure of RBD directed antibody DH1047 in complex with SARS-CoV-2 spike: Local refinement of RBD-Fab interace		Description: Structure of RBD directed antibody DH1047 in complex with SARS-CoV-2 spike: Local refinement of RBD-Fab interace
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: May, A.J]]
	[[Category: Acharya, P]]		[[Category: Acharya, P]]
	[[Category: Manne, K]]		[[Category: Manne, K]]
		+	[[Category: May, A.J]]

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

2022-08-03T03:56:42Z

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

←Older revision

Revision as of 03:56, 3 August 2022

OCA: New page: '''Unreleased structure''' The entry 8dtk is ON HOLD Authors: May, A.J., Manne, K., Acharya, P. Description: Structure of RBD directed antibody DH1047 in complex with SARS-CoV-2 spike:...

2022-08-03T03:56:41Z

New page: '''Unreleased structure''' The entry 8dtk is ON HOLD Authors: May, A.J., Manne, K., Acharya, P. Description: Structure of RBD directed antibody DH1047 in complex with SARS-CoV-2 spike:...

New page

'''Unreleased structure'''

The entry 8dtk is ON HOLD

Authors: May, A.J., Manne, K., Acharya, P.

Description: Structure of RBD directed antibody DH1047 in complex with SARS-CoV-2 spike: Local refinement of RBD-Fab interace
[[Category: Unreleased Structures]]
[[Category: May, A.J]]
[[Category: Acharya, P]]
[[Category: Manne, K]]