OCA at 14:08, 29 November 2023

2023-11-29T14:08:29Z

←Older revision		Revision as of 14:08, 29 November 2023
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-	'''Unreleased structure'''

-	~~The entry~~ 8r0v is ~~ON HOLD until 2024~~-11-29	+	==SARS-CoV-2 Mpro (Omicron, P132H) in complex with alpha-ketoamide 13b-K at pH 6.5==
-		+	<StructureSection load='8r0v' size='340' side='right'caption='[[8r0v]], [[Resolution\|resolution]] 2.48Å' scene=''>
-	~~Authors~~: ~~Ibrahim~~, M., ~~Sun~~, X., ~~Hilgenfeld~~, R.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[8r0v]] is a 4 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=8R0V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8R0V FirstGlance]. <br>
-	~~Description~~: ~~SARS~~-~~CoV~~-~~2 Mpro (Omicron~~, ~~P132H)~~ in ~~complex~~ with ~~alpha~~-~~ketoamide 13b~~-K at ~~pH 6~~.5	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.48Å</td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=O6K:~{tert}-butyl+~{N}-[1-[(2~{S})-3-cyclopropyl-1-oxidanylidene-1-[[(2~{S},3~{R})-3-oxidanyl-4-oxidanylidene-1-[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]-4-[(phenylmethyl)amino]butan-2-yl]amino]propan-2-yl]-2-oxidanylidene-pyridin-3-yl]carbamate'>O6K</scene></td></tr>
-	[[Category: ~~Ibrahim, M~~]]	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=8r0v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8r0v OCA], [https://pdbe.org/8r0v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8r0v RCSB], [https://www.ebi.ac.uk/pdbsum/8r0v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8r0v ProSAT]</span></td></tr>
-	[[Category: Hilgenfeld, R]]	+	</table>
-	[[Category: Sun, X]]	+	== 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: Hilgenfeld R]]
		+	[[Category: Ibrahim M]]
		+	[[Category: Sun X]]

OCA: Protected "8r0v" [edit=sysop:move=sysop]

2023-11-08T08:51:54Z

Protected "8r0v" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:51, 8 November 2023

OCA: New page: '''Unreleased structure''' The entry 8r0v is ON HOLD until 2024-11-29 Authors: Ibrahim, M., Sun, X., Hilgenfeld, R. Description: SARS-CoV-2 Mpro (Omicron, P132H) in complex with alpha-...

2023-11-08T08:51:51Z

New page: '''Unreleased structure''' The entry 8r0v is ON HOLD until 2024-11-29 Authors: Ibrahim, M., Sun, X., Hilgenfeld, R. Description: SARS-CoV-2 Mpro (Omicron, P132H) in complex with alpha-...

New page

'''Unreleased structure'''

The entry 8r0v is ON HOLD until 2024-11-29

Authors: Ibrahim, M., Sun, X., Hilgenfeld, R.

Description: SARS-CoV-2 Mpro (Omicron, P132H) in complex with alpha-ketoamide 13b-K at pH 6.5
[[Category: Unreleased Structures]]
[[Category: Ibrahim, M]]
[[Category: Hilgenfeld, R]]
[[Category: Sun, X]]

8r0v - Revision history

OCA at 14:08, 29 November 2023

OCA: Protected "8r0v" [edit=sysop:move=sysop]

OCA: New page: '''Unreleased structure''' The entry 8r0v is ON HOLD until 2024-11-29 Authors: Ibrahim, M., Sun, X., Hilgenfeld, R. Description: SARS-CoV-2 Mpro (Omicron, P132H) in complex with alpha-...