OCA at 16:29, 9 July 2025

2025-07-09T16:29:52Z

← Older revision		Revision as of 16:29, 9 July 2025
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	~~'''Unreleased structure'''~~

	~~The entry~~ 9rix is ~~ON HOLD~~		==SARS-CoV-2 with a bound inhibitor==
			<StructureSection load='9rix' size='340' side='right'caption='[[9rix]], [[Resolution\|resolution]] 1.73Å' scene=''>
	~~Authors~~: ~~Mac Sweeney~~, A.		== Structural highlights ==
			<table><tr><td colspan='2'>[[9rix]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Severe_acute_respiratory_syndrome_coronavirus_2 Severe acute respiratory syndrome coronavirus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=9RIX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=9RIX FirstGlance]. <br>
	~~Description~~: ~~SARS~~-~~CoV~~-2 with a ~~bound inhibitor~~		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.73Å</td></tr>
	[[Category: ~~Unreleased~~ Structures]]		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A1JGK:(4~{R})-~{N}-[2-(1-benzothiophen-3-yl)ethyl]-7-fluoranyl-2-oxidanylidene-3,4-dihydro-1~{H}-quinoline-4-carboxamide'>A1JGK</scene>, <scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	[[Category: Mac Sweeney, A]]		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=9rix FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=9rix OCA], [https://pdbe.org/9rix PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=9rix RCSB], [https://www.ebi.ac.uk/pdbsum/9rix PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=9rix ProSAT]</span></td></tr>
			</table>
			== Function ==
			[https://www.uniprot.org/uniprot/R1A_SARS2 R1A_SARS2] Multifunctional protein involved in the transcription and replication of viral RNAs. Contains the proteinases responsible for the cleavages of the polyprotein.[UniProtKB:P0C6X7] Inhibits host translation by interacting with the 40S ribosomal subunit. The nsp1-40S ribosome complex further induces an endonucleolytic cleavage near the 5'UTR of host mRNAs, targeting them for degradation. Viral mRNAs are not susceptible to nsp1-mediated endonucleolytic RNA cleavage thanks to the presence of a 5'-end leader sequence and are therefore protected from degradation. By suppressing host gene expression, nsp1 facilitates efficient viral gene expression in infected cells and evasion from host immune response.[UniProtKB:P0C6X7] May play a role in the modulation of host cell survival signaling pathway by interacting with host PHB and PHB2. Indeed, these two proteins play a role in maintaining the functional integrity of the mitochondria and protecting cells from various stresses.[UniProtKB:P0C6X7] Responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PL-PRO possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. Participates together with nsp4 in the assembly of virally-induced cytoplasmic double-membrane vesicles necessary for viral replication. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF3. Prevents also host NF-kappa-B signaling.[UniProtKB:P0C6X7] Participates in the assembly of virally-induced cytoplasmic double-membrane vesicles necessary for viral replication.[UniProtKB:P0C6X7] Cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-\|-[SGACN]. Also able to bind an ADP-ribose-1''-phosphate (ADRP).[UniProtKB:P0C6X7] Plays a role in the initial induction of autophagosomes from host reticulum endoplasmic. Later, limits the expansion of these phagosomes that are no longer able to deliver viral components to lysosomes.[UniProtKB:P0C6X7] Forms a hexadecamer with nsp8 (8 subunits of each) that may participate in viral replication by acting as a primase. Alternatively, may synthesize substantially longer products than oligonucleotide primers.[UniProtKB:P0C6X7] Forms a hexadecamer with nsp7 (8 subunits of each) that may participate in viral replication by acting as a primase. Alternatively, may synthesize substantially longer products than oligonucleotide primers.[UniProtKB:P0C6X7] May participate in viral replication by acting as a ssRNA-binding protein.[UniProtKB:P0C6X7] Plays a pivotal role in viral transcription by stimulating both nsp14 3'-5' exoribonuclease and nsp16 2'-O-methyltransferase activities. Therefore plays an essential role in viral mRNAs cap methylation.[UniProtKB:P0C6X7]
			__TOC__
			</StructureSection>
			[[Category: Large Structures]]
			[[Category: Severe acute respiratory syndrome coronavirus 2]]
			[[Category: Mac Sweeney A]]

OCA: Protected "9rix" [edit=sysop:move=sysop]

2025-06-18T09:37:23Z

Protected "9rix" [edit=sysop:move=sysop]

← Older revision	Revision as of 09:37, 18 June 2025
(No difference)

OCA: New page: '''Unreleased structure''' The entry 9rix is ON HOLD Authors: Mac Sweeney, A. Description: SARS-CoV-2 with a bound inhibitor Category: Unreleased Structures [[Category: Mac Sweeney...

2025-06-18T09:37:21Z

New page: '''Unreleased structure''' The entry 9rix is ON HOLD Authors: Mac Sweeney, A. Description: SARS-CoV-2 with a bound inhibitor Category: Unreleased Structures [[Category: Mac Sweeney...

New page

'''Unreleased structure'''

The entry 9rix is ON HOLD

Authors: Mac Sweeney, A.

Description: SARS-CoV-2 with a bound inhibitor
[[Category: Unreleased Structures]]
[[Category: Mac Sweeney, A]]

9rix - Revision history

OCA at 16:29, 9 July 2025

OCA: Protected "9rix" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 9rix is ON HOLD Authors: Mac Sweeney, A. Description: SARS-CoV-2 with a bound inhibitor Category: Unreleased Structures [[Category: Mac Sweeney...