8dxt - Revision history

OCA at 11:54, 30 October 2024

2024-10-30T11:54:05Z

@@ Line 10: / Line 10: @@
 == 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/>

OCA at 10:15, 25 October 2023

2023-10-25T10:15:50Z

← Older revision		Revision as of 10:15, 25 October 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8dxt]] 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=8DXT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8DXT FirstGlance]. <br>		<table><tr><td colspan='2'>[[8dxt]] 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=8DXT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8DXT FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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]] 2.25Å</td></tr>
			<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=8dxt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8dxt OCA], [https://pdbe.org/8dxt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8dxt RCSB], [https://www.ebi.ac.uk/pdbsum/8dxt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8dxt 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=8dxt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8dxt OCA], [https://pdbe.org/8dxt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8dxt RCSB], [https://www.ebi.ac.uk/pdbsum/8dxt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8dxt ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:33, 18 January 2023

2023-01-18T07:33:06Z

← Older revision		Revision as of 07:33, 18 January 2023
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	~~'''Unreleased structure'''~~

	~~The entry~~ 8dxt is ~~ON HOLD until Paper Publication~~		==Fab arm of antibody GAR12 bound to the receptor binding domain of SARS-CoV-2.==
			<StructureSection load='8dxt' size='340' side='right'caption='[[8dxt]], [[Resolution\|resolution]] 2.25Å' scene=''>
	~~Authors~~: ~~Langley~~, D.B., ~~Christ~~, D., ~~Henry~~, J.Y.		== Structural highlights ==
			<table><tr><td colspan='2'>[[8dxt]] 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=8DXT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8DXT FirstGlance]. <br>
	~~Description~~: ~~Fab arm of antibody GAR12 bound~~ to the receptor ~~binding domain~~ of ~~SARS~~-~~CoV~~-2.		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><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=8dxt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8dxt OCA], [https://pdbe.org/8dxt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8dxt RCSB], [https://www.ebi.ac.uk/pdbsum/8dxt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8dxt ProSAT]</span></td></tr>
	[[Category: ~~Langley,~~ D.B]]		</table>
	[[Category: Henry~~, J.Y~~]]		== Function ==
	[[Category: ~~Christ, D~~]]		[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: Christ D]]
			[[Category: Henry JY]]
			[[Category: Langley DB]]

OCA at 15:31, 7 September 2022

2022-09-07T15:31:24Z

← Older revision		Revision as of 15:31, 7 September 2022
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 8dxt is ON HOLD		The entry 8dxt is ON HOLD until Paper Publication

	Authors: Langley, D.B., Christ, D., Henry, J.Y.		Authors: Langley, D.B., Christ, D., Henry, J.Y.

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

2022-08-10T04:06:31Z

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

← Older revision	Revision as of 04:06, 10 August 2022
(No difference)

OCA: New page: '''Unreleased structure''' The entry 8dxt is ON HOLD Authors: Langley, D.B., Christ, D., Henry, J.Y. Description: Fab arm of antibody GAR12 bound to the receptor binding domain of SARS...

2022-08-10T04:06:30Z

New page: '''Unreleased structure''' The entry 8dxt is ON HOLD Authors: Langley, D.B., Christ, D., Henry, J.Y. Description: Fab arm of antibody GAR12 bound to the receptor binding domain of SARS...

New page

'''Unreleased structure'''

The entry 8dxt is ON HOLD

Authors: Langley, D.B., Christ, D., Henry, J.Y.

Description: Fab arm of antibody GAR12 bound to the receptor binding domain of SARS-CoV-2.
[[Category: Unreleased Structures]]
[[Category: Langley, D.B]]
[[Category: Henry, J.Y]]
[[Category: Christ, D]]