OCA at 19:53, 29 May 2024

OCA — Wed, 29 May 2024 19:53:06 GMT

←Older revision		Revision as of 19:53, 29 May 2024
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	<StructureSection load='8i5l' size='340' side='right'caption='[[8i5l]], [[Resolution\|resolution]] 2.70Å' scene=''>		<StructureSection load='8i5l' size='340' side='right'caption='[[8i5l]], [[Resolution\|resolution]] 2.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[8i5l]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Drosophila_melanogaster_Nora_virus Drosophila melanogaster Nora~~ virus] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8I5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8I5L FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[8i5l]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Chiba_virus Chiba virus] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8I5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8I5L FirstGlance]. <br>
	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.7Å</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]] 2.7Å</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=8i5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8i5l OCA], [https://pdbe.org/8i5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8i5l RCSB], [https://www.ebi.ac.uk/pdbsum/8i5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8i5l 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=8i5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8i5l OCA], [https://pdbe.org/8i5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8i5l RCSB], [https://www.ebi.ac.uk/pdbsum/8i5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8i5l ProSAT]</span></td></tr>
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	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/Q9DU46_CHIBA Q9DU46_CHIBA]		[https://www.uniprot.org/uniprot/Q9DU46_CHIBA Q9DU46_CHIBA]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Noroviruses are major causative agents of acute nonbacterial gastroenteritis in humans. There are neither antiviral therapeutic agents nor vaccines for noroviruses at this time. To evaluate the potential usefulness of two previously isolated human monoclonal antibody fragments, CV-1A1 and CV-2F5, we first conducted a single-particle analysis to determine the cryo-electron microscopy structure of virus-like particles (VLPs) from the genogroup I genotype 4 (GI.4) Chiba strain uniformly coated with CV-1A1 fragments. The results revealed that the GI.4-specific CV-1A1 antibody bound to the P2 subdomain, in which amino acids are less conserved and variable. Interestingly, a part of the CV-1A1 intrudes into the histo-blood group antigen-binding site, suggesting that this antibody might exert neutralizing activity. Next, we determined the crystal structure of the protruding (P) domain of the capsid protein in the complex form with the CV-2F5 antibody fragment. Consistent with the cross-reactivity, the CV-2F5 bound to the P1 subdomain, which is rich in amino acids conserved among the GI strains, and moreover induced a disruption of Chiba VLPs. These results suggest that the broadly reactive CV-2F5 antibody can be used as both a universal detection reagent and an antiviral drug for GI noroviruses. IMPORTANCE: We conducted the structural analyses of the VP1 protein from the GI.4 Chiba norovirus to identify the binding sites of the previously isolated human monoclonal antibodies CV-1A1 and CV-2F5. The cryo-electron microscopy of the Chiba virus-like particles (VLPs) complexed with the Fv-clasp forms of GI.4-specific CV-1A1 revealed that this antibody binds to the highly variable P2 subdomain, suggesting that this antibody may have neutralizing ability against the GI.4 strains. X-ray crystallography revealed that the CV-2F5 antibody bound to the P1 subdomain, which is rich in conserved amino acids. This result is consistent with the ability of the CV-2F5 antibody to react with a wide variety of GI norovirus strains. It is also found that the CV-2F5 antibody caused a disruption of VLPs. Our findings, together with previous reports on the structures of VP1 proteins and VLPs, are expected to open a path for the structure-based development of antivirals and vaccines against norovirus disease.
		+
		+	Structural analyses of the GI.4 norovirus by cryo-electron microscopy and X-ray crystallography revealing binding sites for human monoclonal antibodies.,Kimura-Someya T, Katsura K, Kato-Murayama M, Hosaka T, Uchikubo-Kamo T, Ihara K, Hanada K, Sato S, Murayama K, Kataoka M, Shirouzu M, Someya Y J Virol. 2024 May 14;98(5):e0019724. doi: 10.1128/jvi.00197-24. Epub 2024 Apr 9. PMID:38593321<ref>PMID:38593321</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 8i5l" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Drosophila melanogaster Nora~~ virus]]	+	[[Category: Chiba virus]]
	[[Category: Homo sapiens]]		[[Category: Homo sapiens]]
	[[Category: Large Structures]]		[[Category: Large Structures]]

OCA at 11:42, 1 February 2024

OCA — Thu, 01 Feb 2024 11:42:24 GMT

←Older revision		Revision as of 11:42, 1 February 2024
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-	'''Unreleased structure'''

-	~~The entry~~ 8i5l is ~~ON HOLD until Paper Publication~~	+	==Crystal structure of P domain from norovirus GI.4 capsid protein in complex with broad specificity antibody single-chain Fv fragment CV-2F5.==
-		+	<StructureSection load='8i5l' size='340' side='right'caption='[[8i5l]], [[Resolution\|resolution]] 2.70Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[8i5l]] is a 5 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster_Nora_virus Drosophila melanogaster Nora virus] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8I5L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8I5L FirstGlance]. <br>
-	~~Description~~:	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.7Å</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=8i5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8i5l OCA], [https://pdbe.org/8i5l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8i5l RCSB], [https://www.ebi.ac.uk/pdbsum/8i5l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8i5l ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9DU46_CHIBA Q9DU46_CHIBA]
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Drosophila melanogaster Nora virus]]
		+	[[Category: Homo sapiens]]
		+	[[Category: Large Structures]]
		+	[[Category: Kato-Murayama M]]
		+	[[Category: Murayama K]]
		+	[[Category: Shirouzu M]]

OCA at 10:35, 22 February 2023

OCA — Wed, 22 Feb 2023 10:35:10 GMT

←Older revision		Revision as of 10:35, 22 February 2023
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 8i5l is ON HOLD	+	The entry 8i5l is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "8i5l" [edit=sysop:move=sysop]

OCA — Wed, 01 Feb 2023 09:39:14 GMT

Protected "8i5l" [edit=sysop:move=sysop]

←Older revision

Revision as of 09:39, 1 February 2023

OCA: New page: '''Unreleased structure''' The entry 8i5l is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 01 Feb 2023 09:39:13 GMT

New page: '''Unreleased structure''' The entry 8i5l is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 8i5l is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

8i5l - Revision history

OCA at 19:53, 29 May 2024

OCA at 11:42, 1 February 2024

OCA at 10:35, 22 February 2023

OCA: Protected "8i5l" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8i5l is ON HOLD Authors: Description: Category: Unreleased Structures