OCA at 11:22, 8 November 2023

OCA — Wed, 08 Nov 2023 11:22:14 GMT

←Older revision		Revision as of 11:22, 8 November 2023
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7gel ~~is ON HOLD until Paper Publication~~	+	==Group deposition SARS-CoV-2 main protease in complex with inhibitors from the COVID Moonshot -- Crystal Structure of SARS-CoV-2 main protease in complex with JAG-UCB-cedd89ab-1 (Mpro-x11475)==
-		+	<StructureSection load='7gel' size='340' side='right'caption='[[7gel]], [[Resolution\|resolution]] 1.49Å' scene=''>
-	~~Authors~~: ~~Fearon, D~~.~~, Aimon, A~~.~~, Aschenbrenner, J~~.C.~~, Balcomb, B~~.H.~~, Bertram, F~~.K.R.~~, Brandao~~-~~Neto~~, J., ~~Dias~~, A., ~~Douangamath, A~~.~~, Dunnett, L~~., ~~Godoy, A~~.S.~~, Gorrie~~-~~Stone~~, ~~T.J~~., ~~Koekemoer, L~~.~~, Krojer, T~~., ~~Lithgo, R~~.M.~~, Lukacik, P~~., ~~Marples, P~~.G.~~, Mikolajek, H~~.~~, Nelson, E~~.~~, Owen, C~~.D., ~~Powell, A~~.J., ~~Rangel, V~~.L., ~~Skyner, R~~.~~, Strain~~-~~Damerell~~, C.M., ~~Thompson, W~~.~~, Tomlinson,~~ C.W.E., ~~Wild, C~~., ~~Walsh, M~~.A., ~~von Delft, F~~.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[7gel]] is a 1 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=7GEL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7GEL FirstGlance]. <br>
-	~~Description~~: ~~Group deposition SARS~~-~~CoV~~-2 ~~main protease~~ in ~~complex with inhibitors from~~ the ~~COVID Moonshot~~ --~~Crystal Structure~~ of ~~SARS~~-~~CoV~~-2 ~~main protease in complex with JAG~~-~~UCB~~-~~cedd89ab~~-~~1 (Mpro~~-~~x11475)~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.49Å</td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=DMS:DIMETHYL+SULFOXIDE'>DMS</scene>, <scene name='pdbligand=NQ3:(1M,3P)-1-(3-chlorophenyl)-3-(4-methylpyridin-3-yl)-1,3-dihydro-2H-imidazol-2-one'>NQ3</scene></td></tr>
-	[[Category: ~~Aimon, A~~]]	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7gel FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7gel OCA], [https://pdbe.org/7gel PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7gel RCSB], [https://www.ebi.ac.uk/pdbsum/7gel PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7gel ProSAT]</span></td></tr>
-	[[Category: ~~Rangel, V.L~~]]	+	</table>
-	[[Category: ~~Lukacik, P~~]]	+	== Function ==
-	[[Category: Balcomb~~, B.H~~]]	+	[https://www.uniprot.org/uniprot/R1AB_SARS2 R1AB_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] (PubMed:32198291). Also able to bind an ADP-ribose-1''-phosphate (ADRP).[UniProtKB:P0C6X7]<ref>PMID:32198291</ref> 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] Responsible for replication and transcription of the viral RNA genome.[UniProtKB:P0C6X7] Multi-functional protein with a zinc-binding domain in N-terminus displaying RNA and DNA duplex-unwinding activities with 5' to 3' polarity. Activity of helicase is dependent on magnesium.[UniProtKB:P0C6X7] Enzyme possessing two different activities: an exoribonuclease activity acting on both ssRNA and dsRNA in a 3' to 5' direction and a N7-guanine methyltransferase activity. Acts as a proofreading exoribonuclease for RNA replication, thereby lowering The sensitivity of the virus to RNA mutagens.[UniProtKB:P0C6X7] Mn(2+)-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond.[UniProtKB:P0C6X7] Methyltransferase that mediates mRNA cap 2'-O-ribose methylation to the 5'-cap structure of viral mRNAs. N7-methyl guanosine cap is a prerequisite for binding of nsp16. Therefore plays an essential role in viral mRNAs cap methylation which is essential to evade immune system.[UniProtKB:P0C6X7]
-	[[Category: ~~Strain-Damerell, C.M~~]]	+	== References ==
-	[[Category: ~~Lithgo, R.M~~]]	+	<references/>
-	[[Category: ~~Dunnett, L~~]]	+	__TOC__
-	[[Category: ~~Brandao-Neto, J~~]]	+	</StructureSection>
-	[[Category: ~~Godoy, A.S~~]]	+	[[Category: Large Structures]]
-	[[Category: Fearon, D]]	+	[[Category: Severe acute respiratory syndrome coronavirus 2]]
-	[[Category: ~~Walsh, M.A~~]]	+	[[Category: Aimon A]]
-	[[Category: ~~Nelson, E~~]]	+	[[Category: Aschenbrenner JC]]
-	[[Category: ~~Thompson, W~~]]	+	[[Category: Balcomb BH]]
-	[[Category: ~~Von Delft, F~~]]	+	[[Category: Bertram FKR]]
-	[[Category: ~~Marples,~~ P.G]]	+	[[Category: Brandao-Neto J]]
-	[[Category: ~~Koekemoer, L~~]]	+	[[Category: Dias A]]
-	[[Category: ~~Wild, C~~]]	+	[[Category: Douangamath A]]
-	[[Category: ~~Powell, A.J~~]]	+	[[Category: Dunnett L]]
-	[[Category: ~~Skyner, R~~]]	+	[[Category: Fearon D]]
-	[[Category: ~~Aschenbrenner, J.C~~]]	+	[[Category: Godoy AS]]
-	[[Category: ~~Douangamath, A~~]]	+	[[Category: Gorrie-Stone TJ]]
-	[[Category: ~~Bertram, F.K.~~R]]	+	[[Category: Koekemoer L]]
-	[[Category: ~~Owen, C.D~~]]	+	[[Category: Krojer T]]
-	[[Category: ~~Krojer, T~~]]	+	[[Category: Lithgo RM]]
-	[[Category: Tomlinson~~, C.W.E~~]]	+	[[Category: Lukacik P]]
-	[[Category: ~~Mikolajek, H~~]]	+	[[Category: Marples PG]]
-	[[Category: ~~Gorrie-Stone, T.J~~]]	+	[[Category: Mikolajek H]]
-	[[Category: ~~Dias, A~~]]	+	[[Category: Nelson E]]
		+	[[Category: Owen CD]]
		+	[[Category: Powell AJ]]
		+	[[Category: Rangel VL]]
		+	[[Category: Skyner R]]
		+	[[Category: Strain-Damerell CM]]
		+	[[Category: Thompson W]]
		+	[[Category: Tomlinson CWE]]
		+	[[Category: Walsh MA]]
		+	[[Category: Wild C]]
		+	[[Category: Von Delft F]]

OCA at 11:42, 18 October 2023

OCA — Wed, 18 Oct 2023 11:42:08 GMT

←Older revision		Revision as of 11:42, 18 October 2023
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7gel is ON HOLD	+	The entry 7gel is ON HOLD until Paper Publication

	Authors: Fearon, D., Aimon, A., Aschenbrenner, J.C., Balcomb, B.H., Bertram, F.K.R., Brandao-Neto, J., Dias, A., Douangamath, A., Dunnett, L., Godoy, A.S., Gorrie-Stone, T.J., Koekemoer, L., Krojer, T., Lithgo, R.M., Lukacik, P., Marples, P.G., Mikolajek, H., Nelson, E., Owen, C.D., Powell, A.J., Rangel, V.L., Skyner, R., Strain-Damerell, C.M., Thompson, W., Tomlinson, C.W.E., Wild, C., Walsh, M.A., von Delft, F.		Authors: Fearon, D., Aimon, A., Aschenbrenner, J.C., Balcomb, B.H., Bertram, F.K.R., Brandao-Neto, J., Dias, A., Douangamath, A., Dunnett, L., Godoy, A.S., Gorrie-Stone, T.J., Koekemoer, L., Krojer, T., Lithgo, R.M., Lukacik, P., Marples, P.G., Mikolajek, H., Nelson, E., Owen, C.D., Powell, A.J., Rangel, V.L., Skyner, R., Strain-Damerell, C.M., Thompson, W., Tomlinson, C.W.E., Wild, C., Walsh, M.A., von Delft, F.

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

OCA — Wed, 23 Aug 2023 04:17:17 GMT

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

←Older revision

Revision as of 04:17, 23 August 2023

OCA: New page: '''Unreleased structure''' The entry 7gel is ON HOLD Authors: Fearon, D., Aimon, A., Aschenbrenner, J.C., Balcomb, B.H., Bertram, F.K.R., Brandao-Neto, J., Dias, A., Douangamath, A., Du...

OCA — Wed, 23 Aug 2023 04:17:16 GMT

New page: '''Unreleased structure''' The entry 7gel is ON HOLD Authors: Fearon, D., Aimon, A., Aschenbrenner, J.C., Balcomb, B.H., Bertram, F.K.R., Brandao-Neto, J., Dias, A., Douangamath, A., Du...

New page

'''Unreleased structure'''

The entry 7gel is ON HOLD

Authors: Fearon, D., Aimon, A., Aschenbrenner, J.C., Balcomb, B.H., Bertram, F.K.R., Brandao-Neto, J., Dias, A., Douangamath, A., Dunnett, L., Godoy, A.S., Gorrie-Stone, T.J., Koekemoer, L., Krojer, T., Lithgo, R.M., Lukacik, P., Marples, P.G., Mikolajek, H., Nelson, E., Owen, C.D., Powell, A.J., Rangel, V.L., Skyner, R., Strain-Damerell, C.M., Thompson, W., Tomlinson, C.W.E., Wild, C., Walsh, M.A., von Delft, F.

Description: Group deposition SARS-CoV-2 main protease in complex with inhibitors from the COVID Moonshot --Crystal Structure of SARS-CoV-2 main protease in complex with JAG-UCB-cedd89ab-1 (Mpro-x11475)
[[Category: Unreleased Structures]]
[[Category: Aimon, A]]
[[Category: Rangel, V.L]]
[[Category: Lukacik, P]]
[[Category: Balcomb, B.H]]
[[Category: Strain-Damerell, C.M]]
[[Category: Lithgo, R.M]]
[[Category: Dunnett, L]]
[[Category: Brandao-Neto, J]]
[[Category: Godoy, A.S]]
[[Category: Fearon, D]]
[[Category: Walsh, M.A]]
[[Category: Nelson, E]]
[[Category: Thompson, W]]
[[Category: Von Delft, F]]
[[Category: Marples, P.G]]
[[Category: Koekemoer, L]]
[[Category: Wild, C]]
[[Category: Powell, A.J]]
[[Category: Skyner, R]]
[[Category: Aschenbrenner, J.C]]
[[Category: Douangamath, A]]
[[Category: Bertram, F.K.R]]
[[Category: Owen, C.D]]
[[Category: Krojer, T]]
[[Category: Tomlinson, C.W.E]]
[[Category: Mikolajek, H]]
[[Category: Gorrie-Stone, T.J]]
[[Category: Dias, A]]

7gel - Revision history

OCA at 11:22, 8 November 2023

OCA at 11:42, 18 October 2023

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

OCA: New page: '''Unreleased structure''' The entry 7gel is ON HOLD Authors: Fearon, D., Aimon, A., Aschenbrenner, J.C., Balcomb, B.H., Bertram, F.K.R., Brandao-Neto, J., Dias, A., Douangamath, A., Du...