6qfy - Revision history

OCA at 11:59, 24 January 2024

OCA — Wed, 24 Jan 2024 11:59:49 GMT

←Older revision		Revision as of 11:59, 24 January 2024
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	<StructureSection load='6qfy' size='340' side='right'caption='[[6qfy]], [[Resolution\|resolution]] 2.97Å' scene=''>		<StructureSection load='6qfy' size='340' side='right'caption='[[6qfy]], [[Resolution\|resolution]] 2.97Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qfy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Hev Hev~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QFY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QFY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qfy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Porcine_hemagglutinating_encephalomyelitis_virus Porcine hemagglutinating encephalomyelitis virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QFY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QFY 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=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]] 2.97Å</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=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=6qfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qfy OCA], [https://pdbe.org/6qfy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qfy RCSB], [https://www.ebi.ac.uk/pdbsum/6qfy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qfy 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=6qfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qfy OCA], [https://pdbe.org/6qfy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qfy RCSB], [https://www.ebi.ac.uk/pdbsum/6qfy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qfy ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A1Z2WUW0_9BETC A0A1Z2WUW0_9BETC]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	==See Also==		==See Also==
	*[[Sandbox 3001\|Sandbox 3001]]		*[[Sandbox 3001\|Sandbox 3001]]
-	*[[Spike protein\|Spike protein]]	+	*[[Spike protein 3D structures\|Spike protein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Hev]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Bakkers, M~~]]	+	[[Category: Porcine hemagglutinating encephalomyelitis virus]]
-	[[Category: ~~Huizinga, E G~~]]	+	[[Category: Bakkers M]]
-	[[Category: ~~Lang, Y~~]]	+	[[Category: Huizinga EG]]
-	[[Category: ~~Beta-sandwich]]~~	+	[[Category: Lang Y]]
-	~~[[Category: Sialic acid binding]]~~	+
-	~~[[Category: Spike-ntd]]~~	+
-	~~[[Category: Viral protein]]~~	+
-	~~[[Category: Viral spike protein~~]]	+

OCA at 10:38, 18 March 2021

OCA — Thu, 18 Mar 2021 10:38:29 GMT

←Older revision		Revision as of 10:38, 18 March 2021
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	==CRYSTAL STRUCTURE OF PORCINE HEMAGGLUTINATING ENCEPHALOMYELITIS VIRUS SPIKE PROTEIN LECTIN DOMAIN==		==CRYSTAL STRUCTURE OF PORCINE HEMAGGLUTINATING ENCEPHALOMYELITIS VIRUS SPIKE PROTEIN LECTIN DOMAIN==
-	<StructureSection load='6qfy' size='340' side='right' caption='[[6qfy]], [[Resolution\|resolution]] 2.97Å' scene=''>	+	<StructureSection load='6qfy' size='340' side='right'caption='[[6qfy]], [[Resolution\|resolution]] 2.97Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qfy]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Hev Hev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QFY OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6QFY FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qfy]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Hev Hev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QFY OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QFY FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</scene>, <scene name='pdbligand=NAG:N-ACETYL-D-GLUCOSAMINE'>NAG</scene></td></tr>	+	</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=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'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6qfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qfy OCA], [~~http~~://pdbe.org/6qfy PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6qfy RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6qfy PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6qfy 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=6qfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qfy OCA], [https://pdbe.org/6qfy PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qfy RCSB], [https://www.ebi.ac.uk/pdbsum/6qfy PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qfy ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	</div>		</div>
	<div class="pdbe-citations 6qfy" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6qfy" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Sandbox 3001\|Sandbox 3001]]
		+	*[[Spike protein\|Spike protein]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Hev]]		[[Category: Hev]]
		+	[[Category: Large Structures]]
	[[Category: Bakkers, M]]		[[Category: Bakkers, M]]
	[[Category: Huizinga, E G]]		[[Category: Huizinga, E G]]

OCA at 08:51, 21 February 2019

OCA — Thu, 21 Feb 2019 08:51:30 GMT

←Older revision		Revision as of 08:51, 21 February 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 6qfy is ~~ON HOLD~~	+	==CRYSTAL STRUCTURE OF PORCINE HEMAGGLUTINATING ENCEPHALOMYELITIS VIRUS SPIKE PROTEIN LECTIN DOMAIN==
		+	<StructureSection load='6qfy' size='340' side='right' caption='[[6qfy]], [[Resolution\|resolution]] 2.97Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6qfy]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Hev Hev]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QFY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QFY FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BMA:BETA-D-MANNOSE'>BMA</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'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6qfy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qfy OCA], [http://pdbe.org/6qfy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qfy RCSB], [http://www.ebi.ac.uk/pdbsum/6qfy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qfy ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Human betacoronaviruses OC43 and HKU1 are endemic respiratory pathogens and, while related, originated from independent zoonotic introductions. OC43 is in fact a host-range variant of the species Betacoronavirus-1, and more closely related to bovine coronavirus (BCoV)-its presumptive ancestor-and porcine hemagglutinating encephalomyelitis virus (PHEV). The beta1-coronaviruses (beta1CoVs) and HKU1 employ glycan-based receptors carrying 9-O-acetylated sialic acid (9-O-Ac-Sia). Receptor binding is mediated by spike protein S, the main determinant of coronavirus host specificity. For BCoV, a crystal structure for the receptor-binding domain S1(A) is available and for HKU1 a cryoelectron microscopy structure of the complete S ectodomain. However, the location of the receptor-binding site (RBS), arguably the single-most important piece of information, is unknown. Here we solved the 3.0-A crystal structure of PHEV S1(A) We then took a comparative structural analysis approach to map the beta1CoV S RBS, using the general design of 9-O-Ac-Sia-binding sites as blueprint, backed-up by automated ligand docking, structure-guided mutagenesis of OC43, BCoV, and PHEV S1(A), and infectivity assays with BCoV-S-pseudotyped vesicular stomatitis viruses. The RBS is not exclusive to OC43 and related animal viruses, but is apparently conserved and functional also in HKU1 S1(A) The binding affinity of the HKU1 S RBS toward short sialoglycans is significantly lower than that of OC43, which we attribute to differences in local architecture and accessibility, and which may be indicative for differences between the two viruses in receptor fine-specificity. Our findings challenge reports that would map the OC43 RBS elsewhere in S1(A) and that of HKU1 in domain S1(B).

-	~~Authors~~:	+	Human coronaviruses OC43 and HKU1 bind to 9-O-acetylated sialic acids via a conserved receptor-binding site in spike protein domain A.,Hulswit RJG, Lang Y, Bakkers MJG, Li W, Li Z, Schouten A, Ophorst B, van Kuppeveld FJM, Boons GJ, Bosch BJ, Huizinga EG, de Groot RJ Proc Natl Acad Sci U S A. 2019 Feb 12;116(7):2681-2690. doi:, 10.1073/pnas.1809667116. Epub 2019 Jan 24. PMID:30679277<ref>PMID:30679277</ref>

-	~~Description~~:	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
		+	<div class="pdbe-citations 6qfy" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Hev]]
		+	[[Category: Bakkers, M]]
		+	[[Category: Huizinga, E G]]
		+	[[Category: Lang, Y]]
		+	[[Category: Beta-sandwich]]
		+	[[Category: Sialic acid binding]]
		+	[[Category: Spike-ntd]]
		+	[[Category: Viral protein]]
		+	[[Category: Viral spike protein]]

OCA: Protected "6qfy" [edit=sysop:move=sysop]

OCA — Wed, 16 Jan 2019 10:53:14 GMT

Protected "6qfy" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:53, 16 January 2019

OCA: New page: '''Unreleased structure''' The entry 6qfy is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 16 Jan 2019 10:53:13 GMT

New page: '''Unreleased structure''' The entry 6qfy is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 6qfy is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]