OCA at 12:54, 24 January 2024

OCA — Wed, 24 Jan 2024 12:54:43 GMT

←Older revision		Revision as of 12:54, 24 January 2024
Line 1:		Line 1:

-	====	+	==3C-like protease from Southampton virus complexed with FMOPL000013a.==
-	<StructureSection load='6t4s' size='340' side='right'caption='[[6t4s]]' scene=''>	+	<StructureSection load='6t4s' size='340' side='right'caption='[[6t4s]], [[Resolution\|resolution]] 2.02Å' 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'>[[6t4s]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Southampton_virus_(serotype_3) Southampton virus (serotype 3)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6T4S OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6T4S 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=6t4s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t4s OCA], [~~http~~://pdbe.org/6t4s PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6t4s RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6t4s PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6t4s ProSAT]</span></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]] 2.02Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=K2P:2-(trifluoromethoxy)benzoic+acid'>K2P</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=6t4s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t4s OCA], [https://pdbe.org/6t4s PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6t4s RCSB], [https://www.ebi.ac.uk/pdbsum/6t4s PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6t4s ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/POLG_SOUV3 POLG_SOUV3] Protein p48 may play a role in viral replication by interacting with host VAPA, a vesicle-associated membrane protein that plays a role in SNARE-mediated vesicle fusion. This interaction may target replication complex to intracellular membranes (By similarity). NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity (By similarity). Protein P22 may play a role in targeting replication complex to intracellular membranes. Viral genome-linked protein is covalently linked to the 5'-end of the positive-strand, negative-strand genomic RNAs and subgenomic RNA. Acts as a genome-linked replication primer. May recruit ribosome to viral RNA thereby promoting viral proteins translation (By similarity). 3C-like protease processes the polyprotein: 3CLpro-RdRp is first released by autocleavage, then all other proteins are cleaved. May cleave polyadenylate-binding protein thereby inhibiting cellular translation.[PROSITE-ProRule:PRU00870] RNA-directed RNA polymerase replicates genomic and antigenomic RNA by recognizing replications specific signals. Transcribes also a subgenomic mRNA by initiating RNA synthesis internally on antigenomic RNA. This sgRNA codes for structural proteins. Catalyzes the covalent attachment VPg with viral RNAs (By similarity).[PROSITE-ProRule:PRU00539]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Outbreaks of human epidemic nonbacterial gastroenteritis are mainly caused by noroviruses. Viral replication requires a 3C-like cysteine protease (3CL(pro)) which processes the 200 kDa viral polyprotein into six functional proteins. The 3CL(pro) has attracted much interest due to its potential as a target for antiviral drugs. A system for growing high-quality crystals of native Southampton norovirus 3CL(pro) (SV3CP) has been established, allowing the ligand-free crystal structure to be determined to 1.3 A in a tetrameric state. This also allowed crystal-based fragment screening to be performed with various compound libraries, ultimately to guide drug discovery for SV3CP. A total of 19 fragments were found to bind to the protease out of the 844 which were screened. Two of the hits were located at the active site of SV3CP and showed good inhibitory activity in kinetic assays. Another 5 were found at the enzyme's putative RNA-binding site and a further 11 were located in the symmetric central cavity of the tetramer.
		+
		+	In crystallo-screening for discovery of human norovirus 3C-like protease inhibitors.,Guo J, Douangamath A, Song W, Coker AR, Chan AWE, Wood SP, Cooper JB, Resnick E, London N, Delft FV J Struct Biol X. 2020 Jul 16;4:100031. doi: 10.1016/j.yjsbx.2020.100031., eCollection 2020. PMID:32743543<ref>PMID:32743543</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6t4s" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Virus protease 3D structures\|Virus protease 3D structures]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Cooper JB]]
		+	[[Category: Guo J]]

OCA at 06:18, 19 August 2020

OCA — Wed, 19 Aug 2020 06:18:58 GMT

←Older revision		Revision as of 06:18, 19 August 2020
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-	'''Unreleased structure'''

-	~~The entry~~ 6t4s ~~is ON HOLD until Paper Publication~~	+	====
-		+	<StructureSection load='6t4s' size='340' side='right'caption='[[6t4s]]' scene=''>
-	~~Authors~~: ~~Guo, J~~.~~, Cooper, J~~.B.	+	== 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~~: 3C-~~like protease from Southampton virus complexed with FMOPL000013a~~.	+	</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=6t4s FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6t4s OCA], [http://pdbe.org/6t4s PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6t4s RCSB], [http://www.ebi.ac.uk/pdbsum/6t4s PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6t4s ProSAT]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[[Category: ~~Guo, J~~]]	+	__TOC__
-	[[Category: ~~Cooper, J.B~~]]	+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Z-disk]]

OCA at 07:25, 30 October 2019

OCA — Wed, 30 Oct 2019 07:25:22 GMT

←Older revision		Revision as of 07:25, 30 October 2019
Line 5:		Line 5:
	Authors: Guo, J., Cooper, J.B.		Authors: Guo, J., Cooper, J.B.

-	Description: ~~Native C3~~-like protease from Southampton virus complexed with FMOPL000013a.	+	Description: 3C-like protease from Southampton virus complexed with FMOPL000013a.
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
	[[Category: Guo, J]]		[[Category: Guo, J]]
	[[Category: Cooper, J.B]]		[[Category: Cooper, J.B]]

OCA: Protected "6t4s" [edit=sysop:move=sysop]

OCA — Wed, 23 Oct 2019 05:01:36 GMT

Protected "6t4s" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:01, 23 October 2019

OCA: New page: '''Unreleased structure''' The entry 6t4s is ON HOLD until Paper Publication Authors: Guo, J., Cooper, J.B. Description: Native C3-like protease from Southampton virus complexed with F...

OCA — Wed, 23 Oct 2019 05:01:34 GMT

New page: '''Unreleased structure''' The entry 6t4s is ON HOLD until Paper Publication Authors: Guo, J., Cooper, J.B. Description: Native C3-like protease from Southampton virus complexed with F...

New page

'''Unreleased structure'''

The entry 6t4s is ON HOLD until Paper Publication

Authors: Guo, J., Cooper, J.B.

Description: Native C3-like protease from Southampton virus complexed with FMOPL000013a.
[[Category: Unreleased Structures]]
[[Category: Guo, J]]
[[Category: Cooper, J.B]]

6t4s - Revision history

OCA at 12:54, 24 January 2024

OCA at 06:18, 19 August 2020

OCA at 07:25, 30 October 2019

OCA: Protected "6t4s" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 6t4s is ON HOLD until Paper Publication Authors: Guo, J., Cooper, J.B. Description: Native C3-like protease from Southampton virus complexed with F...