OCA at 13:40, 6 November 2024

2024-11-06T13:40:07Z

← Older revision		Revision as of 13:40, 6 November 2024
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	====		==Chimeric flavivirus between Binjari virus and Murray Valley encephalitis virus==
	<~~StructureSection~~ load='7kvb' size='340' side='right'caption='[[7kvb]]' scene=''>		<SX load='7kvb' size='340' side='right' viewer='molstar' caption='[[7kvb]], [[Resolution\|resolution]] 3.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>		<table><tr><td colspan='2'>[[7kvb]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Murray_Valley_encephalitis_virus Murray Valley encephalitis virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7KVB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7KVB FirstGlance]. <br>
	</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=7kvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kvb OCA], [https://pdbe.org/7kvb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7kvb RCSB], [https://www.ebi.ac.uk/pdbsum/7kvb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7kvb ProSAT]</span></td></tr>		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 3.7Å</td></tr>
			<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>
			<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7kvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kvb OCA], [https://pdbe.org/7kvb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7kvb RCSB], [https://www.ebi.ac.uk/pdbsum/7kvb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7kvb ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/POLG_MVEV5 POLG_MVEV5] Capsid protein C self-assembles to form an icosahedral capsid about 30 nm in diameter. The capsid encapsulates the genomic RNA (By similarity). prM acts as a chaperone for envelope protein E during intracellular virion assembly by masking and inactivating envelope protein E fusion peptide. prM is matured in the last step of virion assembly, presumably to avoid catastrophic activation of the viral fusion peptide induced by the acidic pH of the trans-Golgi network. After cleavage by host furin, the pr peptide is released in the extracellular medium and small envelope protein M and envelope protein E homodimers are dissociated (By similarity). Envelope protein E binding to host cell surface receptor is followed by virus internalization through clathrin-mediated endocytosis. Envelope protein E is subsequently involved in membrane fusion between virion and host late endosomes. Synthesized as a homodimer with prM which acts as a chaperone for envelope protein E. After cleavage of prM, envelope protein E dissociate from small envelope protein M and homodimerizes (By similarity). Non-structural protein 1 is involved in virus replication and regulation of the innate immune response (By similarity). Non-structural protein 2A may be involved viral RNA replication and capsid assembly (Potential). Non-structural protein 2B is a required cofactor for the serine protease function of NS3 (By similarity). Serine protease NS3 displays three enzymatic activities: serine protease, NTPase and RNA helicase. NS3 serine protease, in association with NS2B, performs its autocleavage and cleaves the polyprotein at dibasic sites in the cytoplasm: C-prM, NS2A-NS2B, NS2B-NS3, NS3-NS4A, NS4A-2K and NS4B-NS5. NS3 RNA helicase binds RNA and unwinds dsRNA in the 3' to 5' direction (By similarity). Non-structural protein 4A induces host endoplasmic reticulum membrane rearrangements leading to the formation of virus-induced membranous vesicles hosting the dsRNA and polymerase, functioning as a replication complex. NS4A might also regulate the ATPase activity of the NS3 helicase (By similarity). Peptide 2k functions as a signal peptide for NS4B and is required for the interferon antagonism activity of the latter (By similarity). Non-structural protein 4B inhibits interferon (IFN)-induced host STAT1 phosphorylation and nuclear translocation, thereby preventing the establishment of cellular antiviral state by blocking the IFN-alpha/beta pathway (By similarity). RNA-directed RNA polymerase NS5 replicates the viral (+) and (-) genome, and performs the capping of genomes in the cytoplasm. NS5 methylates viral RNA cap at guanine N-7 and ribose 2'-O positions. Besides its role in genome replication, also prevents the establishment of cellular antiviral state by blocking the interferon-alpha/beta (IFN-alpha/beta) signaling pathway (By similarity).
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The epidemic emergence of relatively rare and geographically isolated flaviviruses adds to the ongoing disease burden of viruses such as dengue. Structural analysis is key to understand and combat these pathogens. Here, we present a chimeric platform based on an insect-specific flavivirus for the safe and rapid structural analysis of pathogenic viruses. We use this approach to resolve the architecture of two neurotropic viruses and a structure of dengue virus at 2.5 A, the highest resolution for an enveloped virion. These reconstructions allow improved modelling of the stem region of the envelope protein, revealing two lipid-like ligands within highly conserved pockets. We show that these sites are essential for viral growth and important for viral maturation. These findings define a hallmark of flavivirus virions and a potential target for broad-spectrum antivirals and vaccine design. We anticipate the chimeric platform to be widely applicable for investigating flavivirus biology.

			A unified route for flavivirus structures uncovers essential pocket factors conserved across pathogenic viruses.,Hardy JM, Newton ND, Modhiran N, Scott CAP, Venugopal H, Vet LJ, Young PR, Hall RA, Hobson-Peters J, Coulibaly F, Watterson D Nat Commun. 2021 Jun 1;12(1):3266. doi: 10.1038/s41467-021-22773-1. PMID:34075032<ref>PMID:34075032</ref>

			From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
			<div class="pdbe-citations 7kvb" style="background-color:#fffaf0;"></div>
			== References ==
			<references/>
	__TOC__		__TOC__
	</~~StructureSection~~>		</SX>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Z-disk~~]]		[[Category: Murray Valley encephalitis virus]]
			[[Category: Coulibaly FJ]]
			[[Category: Hardy JM]]
			[[Category: Newton ND]]
			[[Category: Venugopal HV]]
			[[Category: Watterson D]]

OCA at 10:09, 14 July 2021

2021-07-14T10:09:48Z

← Older revision		Revision as of 10:09, 14 July 2021
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	<StructureSection load='7kvb' size='340' side='right'caption='[[7kvb]]' scene=''>		<StructureSection load='7kvb' size='340' side='right'caption='[[7kvb]]' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>		<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
	</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=7kvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kvb OCA], [~~http~~://pdbe.org/7kvb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=7kvb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/7kvb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=7kvb ProSAT]</span></td></tr>		</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=7kvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kvb OCA], [https://pdbe.org/7kvb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7kvb RCSB], [https://www.ebi.ac.uk/pdbsum/7kvb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7kvb ProSAT]</span></td></tr>
	</table>		</table>
	__TOC__		__TOC__

OCA at 10:42, 24 December 2020

2020-12-24T10:42:17Z

← Older revision		Revision as of 10:42, 24 December 2020
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	~~'''Unreleased structure'''~~

	~~The entry~~ 7kvb is ~~ON HOLD~~		====
			<StructureSection load='7kvb' size='340' side='right'caption='[[7kvb]]' scene=''>
	~~Authors:~~		== Structural highlights ==
			<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
	~~Description~~:		</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=7kvb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7kvb OCA], [http://pdbe.org/7kvb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=7kvb RCSB], [http://www.ebi.ac.uk/pdbsum/7kvb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=7kvb ProSAT]</span></td></tr>
	[[Category: ~~Unreleased Structures~~]]		</table>
			__TOC__
			</StructureSection>
			[[Category: Large Structures]]
			[[Category: Z-disk]]

OCA: Protected "7kvb" [edit=sysop:move=sysop]

2020-12-02T05:56:49Z

Protected "7kvb" [edit=sysop:move=sysop]

← Older revision	Revision as of 05:56, 2 December 2020
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7kvb is ON HOLD Authors: Description: Category: Unreleased Structures

2020-12-02T05:56:48Z

New page: '''Unreleased structure''' The entry 7kvb is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7kvb is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]

7kvb - Revision history

OCA at 13:40, 6 November 2024

OCA at 10:09, 14 July 2021

OCA at 10:42, 24 December 2020

OCA: Protected "7kvb" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 7kvb is ON HOLD Authors: Description: Category: Unreleased Structures