5kwb - Revision history

OCA at 10:59, 27 September 2023

OCA — Wed, 27 Sep 2023 10:59:14 GMT

←Older revision		Revision as of 10:59, 27 September 2023
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	<StructureSection load='5kwb' size='340' side='right'caption='[[5kwb]], [[Resolution\|resolution]] 1.91Å' scene=''>		<StructureSection load='5kwb' size='340' side='right'caption='[[5kwb]], [[Resolution\|resolution]] 1.91Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kwb]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Cvhn1 Cvhn1~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KWB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5KWB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kwb]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Human_coronavirus_HKU1_(isolate_N1) Human coronavirus HKU1 (isolate N1)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KWB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5KWB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=~~FRU~~:~~FRUCTOSE~~'>~~FRU~~</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]] 1.91Å</td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S, 3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=443239 CVHN1])~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FRU:FRUCTOSE'>FRU</scene>, <scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=PRD_900003:sucrose'>PRD_900003</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5kwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kwb OCA], [~~http~~://pdbe.org/5kwb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5kwb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5kwb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5kwb 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=5kwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kwb OCA], [https://pdbe.org/5kwb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5kwb RCSB], [https://www.ebi.ac.uk/pdbsum/5kwb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5kwb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/SPIKE_CVHN1 SPIKE_CVHN1]] S1 attaches the virion to the cell membrane by interacting with cell receptors, initiating the infection. S2 is a class I viral fusion protein. Under the current model, the protein has at least 3 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. Presumably interacts with target cell lipid raft after cell attachment (By similarity).	+	[https://www.uniprot.org/uniprot/SPIKE_CVHN1 SPIKE_CVHN1] S1 attaches the virion to the cell membrane by interacting with cell receptors, initiating the infection. S2 is a class I viral fusion protein. Under the current model, the protein has at least 3 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. Presumably interacts with target cell lipid raft after cell attachment (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 27:		Line 27:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Cvhn1]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cui, S]]	+	[[Category: Cui S]]
-	[[Category: Guan, H]]	+	[[Category: Guan H]]
-	[[Category: Wang, M]]	+	[[Category: Wang M]]
-	[[Category: Wojdyla~~, J A]]~~	+	[[Category: Wojdyla JA]]
-	~~[[Category: Coronavirus spike protein]]~~	+
-	~~[[Category: Hku1]]~~	+
-	~~[[Category: Receptor binding domain]]~~	+
-	~~[[Category: Receptor binding motif]]~~	+
-	~~[[Category: S1-ctd]]~~	+
-	~~[[Category: Viral protein]]~~	+
-	~~[[Category: Virus entry~~]]	+

OCA at 06:35, 5 August 2020

OCA — Wed, 05 Aug 2020 06:35:49 GMT

←Older revision		Revision as of 06:35, 5 August 2020
Line 1:		Line 1:

	==Crystal Structure of the Receptor Binding Domain of the Spike Glycoprotein of Human Betacoronavirus HKU1 (HKU1 1A-CTD, 1.9 angstrom, molecular replacement)==		==Crystal Structure of the Receptor Binding Domain of the Spike Glycoprotein of Human Betacoronavirus HKU1 (HKU1 1A-CTD, 1.9 angstrom, molecular replacement)==
-	<StructureSection load='5kwb' size='340' side='right' caption='[[5kwb]], [[Resolution\|resolution]] 1.91Å' scene=''>	+	<StructureSection load='5kwb' size='340' side='right'caption='[[5kwb]], [[Resolution\|resolution]] 1.91Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5kwb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KWB OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5KWB FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5kwb]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Cvhn1 Cvhn1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KWB OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5KWB FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=~~SUC~~:~~SUCROSE~~'>~~SUC~~</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GLC:ALPHA-D-GLUCOSE'>GLC</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=FRU:FRUCTOSE'>FRU</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5kwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kwb OCA], [http://pdbe.org/5kwb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kwb RCSB], [http://www.ebi.ac.uk/pdbsum/5kwb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kwb ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">S, 3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=443239 CVHN1])</td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5kwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kwb OCA], [http://pdbe.org/5kwb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kwb RCSB], [http://www.ebi.ac.uk/pdbsum/5kwb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kwb ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5kwb" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5kwb" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Sandbox 3001\|Sandbox 3001]]
		+	*[[Spike protein\|Spike protein]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Cvhn1]]
		+	[[Category: Large Structures]]
	[[Category: Cui, S]]		[[Category: Cui, S]]
	[[Category: Guan, H]]		[[Category: Guan, H]]

OCA at 10:55, 3 August 2017

OCA — Thu, 03 Aug 2017 10:55:16 GMT

←Older revision		Revision as of 10:55, 3 August 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5kwb is ~~ON HOLD~~ ~~until Paper~~ Publication	+	==Crystal Structure of the Receptor Binding Domain of the Spike Glycoprotein of Human Betacoronavirus HKU1 (HKU1 1A-CTD, 1.9 angstrom, molecular replacement)==
		+	<StructureSection load='5kwb' size='340' side='right' caption='[[5kwb]], [[Resolution\|resolution]] 1.91Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5kwb]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5KWB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5KWB FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene>, <scene name='pdbligand=SUC:SUCROSE'>SUC</scene></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5kwb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5kwb OCA], [http://pdbe.org/5kwb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5kwb RCSB], [http://www.ebi.ac.uk/pdbsum/5kwb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5kwb ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/SPIKE_CVHN1 SPIKE_CVHN1]] S1 attaches the virion to the cell membrane by interacting with cell receptors, initiating the infection. S2 is a class I viral fusion protein. Under the current model, the protein has at least 3 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. Presumably interacts with target cell lipid raft after cell attachment (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Human coronavirus (CoV) HKU1 is a pathogen causing acute respiratory illnesses and so far little is known about its biology. HKU1 virus uses its S1 subunit C-terminal domain (CTD) and not the N-terminal domain like other lineage A beta-CoVs to bind to its yet unknown human receptor. Here we present the crystal structure of HKU1 CTD at 1.9 A resolution. The structure consists of three subdomains: core, insertion and subdomain-1 (SD-1). While the structure of the core and SD-1 subdomains of HKU1 are highly similar to those of other beta-CoVs, the insertion subdomain adopts a novel fold, which is largely invisible in the cryo-EM structure of the HKU1 S trimer. We identify five residues in the insertion subdomain that are critical for binding of neutralizing antibodies and two residues essential for receptor binding. Our study contributes to a better understanding of entry, immunity and evolution of CoV S proteins.

-	~~Authors~~:	+	Crystal structure of the receptor binding domain of the spike glycoprotein of human betacoronavirus HKU1.,Ou X, Guan H, Qin B, Mu Z, Wojdyla JA, Wang M, Dominguez SR, Qian Z, Cui S Nat Commun. 2017 May 23;8:15216. doi: 10.1038/ncomms15216. PMID:28534504<ref>PMID:28534504</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 5kwb" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Cui, S]]
		+	[[Category: Guan, H]]
		+	[[Category: Wang, M]]
		+	[[Category: Wojdyla, J A]]
		+	[[Category: Coronavirus spike protein]]
		+	[[Category: Hku1]]
		+	[[Category: Receptor binding domain]]
		+	[[Category: Receptor binding motif]]
		+	[[Category: S1-ctd]]
		+	[[Category: Viral protein]]
		+	[[Category: Virus entry]]

OCA at 14:01, 19 October 2016

OCA — Wed, 19 Oct 2016 14:01:29 GMT

←Older revision		Revision as of 14:01, 19 October 2016
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5kwb is ON HOLD	+	The entry 5kwb is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "5kwb" [edit=sysop:move=sysop]

OCA — Wed, 27 Jul 2016 13:27:42 GMT

Protected "5kwb" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:27, 27 July 2016

OCA: New page: '''Unreleased structure''' The entry 5kwb is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 27 Jul 2016 13:27:40 GMT

New page: '''Unreleased structure''' The entry 5kwb is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5kwb is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]