OCA at 05:14, 15 May 2024

2024-05-15T05:14:14Z

← Older revision		Revision as of 05:14, 15 May 2024
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	~~'''Unreleased structure'''~~

	~~The entry~~ 7gzi is ~~ON HOLD~~		==Crystal structure of SARS-CoV-2 NSP3 Macrodomain in complex with ASAP-0000753-001==
			<StructureSection load='7gzi' size='340' side='right'caption='[[7gzi]], [[Resolution\|resolution]] 1.30Å' scene=''>
	~~Authors~~: ~~Aschenbrenner~~, J.C., ~~Fearon~~, D., ~~Tomlinson~~, C.W.E., ~~Marples, P~~.G.~~, Fairhead, M~~.~~, Balcomb, B~~.H., ~~Chandran, A~~.V., ~~Godoy, A~~.S., ~~Koekemoer, L~~., ~~Lithgo, R~~.M., ~~Ni, X~~.~~, Thompson, W~~.~~, Wang, S~~.~~, Wild,~~ C., ~~Williams, E~~.P., ~~Winokan, M~~., ~~Walsh, M~~.A.~~, von Delft, F~~.		== Structural highlights ==
			<table><tr><td colspan='2'>[[7gzi]] 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=7GZI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7GZI FirstGlance]. <br>
	~~Description~~: ~~Crystal structure~~ of ~~SARS~~-~~CoV~~-~~2 NSP3 Macrodomain~~ in ~~complex~~ with ~~ASAP~~-~~0000753~~-~~001~~		</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.3Å</td></tr>
	[[Category: ~~Unreleased~~ Structures]]		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=A1AKR:3-[4-(cyclopropylcarbamamido)benzamido]-1-methyl-1H-pyrrolo[2,3-b]pyridine-2-carboxylic+acid'>A1AKR</scene></td></tr>
	[[Category: ~~Balcomb, B.H~~]]		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=7gzi FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7gzi OCA], [https://pdbe.org/7gzi PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7gzi RCSB], [https://www.ebi.ac.uk/pdbsum/7gzi PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7gzi ProSAT]</span></td></tr>
	[[Category: ~~Williams, E.P~~]]		</table>
	[[Category: ~~Chandran, A.V~~]]		== Function ==
	[[Category: ~~Lithgo, R.M~~]]		[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: ~~Godoy, A.S~~]]		== References ==
	[[Category: Fearon, D]]		<references/>
	[[Category: ~~Walsh, M.A~~]]		__TOC__
	[[Category: ~~Wang, S~~]]		</StructureSection>
	[[Category: ~~Thompson, W~~]]		[[Category: Large Structures]]
	[[Category: ~~Fairhead, M~~]]		[[Category: Severe acute respiratory syndrome coronavirus 2]]
	[[Category: ~~Von Delft, F~~]]		[[Category: Aschenbrenner JC]]
	[[Category: ~~Marples, P.G~~]]		[[Category: Balcomb BH]]
	[[Category: ~~Koekemoer, L~~]]		[[Category: Chandran AV]]
	[[Category: ~~Wild, C~~]]		[[Category: Fairhead M]]
	[[Category: ~~Ni, X~~]]		[[Category: Fearon D]]
	[[Category: ~~Aschenbrenner, J.~~C]]		[[Category: Godoy AS]]
	[[Category: Winokan, M]]		[[Category: Koekemoer L]]
	[[Category: ~~Tomlinson, C.W.E~~]]		[[Category: Lithgo RM]]
			[[Category: Marples PG]]
			[[Category: Ni X]]
			[[Category: Thompson W]]
			[[Category: Tomlinson CWE]]
			[[Category: Walsh MA]]
			[[Category: Wang S]]
			[[Category: Wild C]]
			[[Category: Williams EP]]
			[[Category: Winokan M]]
			[[Category: Von Delft F]]

OCA at 08:56, 27 March 2024

2024-03-27T08:56:45Z

← Older revision		Revision as of 08:56, 27 March 2024
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 7gzi is ON HOLD ~~until sometime in the future~~		The entry 7gzi is ON HOLD

	Authors: Aschenbrenner, J.C., Fearon, D., Tomlinson, C.W.E., Marples, P.G., Fairhead, M., Balcomb, B.H., Chandran, A.V., Godoy, A.S., Koekemoer, L., Lithgo, R.M., Ni, X., Thompson, W., Wang, S., Wild, C., Williams, E.P., Winokan, M., Walsh, M.A., von Delft, F.		Authors: Aschenbrenner, J.C., Fearon, D., Tomlinson, C.W.E., Marples, P.G., Fairhead, M., Balcomb, B.H., Chandran, A.V., Godoy, A.S., Koekemoer, L., Lithgo, R.M., Ni, X., Thompson, W., Wang, S., Wild, C., Williams, E.P., Winokan, M., Walsh, M.A., von Delft, F.

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

2024-02-01T10:26:57Z

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

← Older revision	Revision as of 10:26, 1 February 2024
(No difference)

OCA: New page: '''Unreleased structure''' The entry 7gzi is ON HOLD until sometime in the future Authors: Aschenbrenner, J.C., Fearon, D., Tomlinson, C.W.E., Marples, P.G., Fairhead, M., Balcomb, B.H....

2024-02-01T10:26:56Z

New page: '''Unreleased structure''' The entry 7gzi is ON HOLD until sometime in the future Authors: Aschenbrenner, J.C., Fearon, D., Tomlinson, C.W.E., Marples, P.G., Fairhead, M., Balcomb, B.H....

New page

'''Unreleased structure'''

The entry 7gzi is ON HOLD until sometime in the future

Authors: Aschenbrenner, J.C., Fearon, D., Tomlinson, C.W.E., Marples, P.G., Fairhead, M., Balcomb, B.H., Chandran, A.V., Godoy, A.S., Koekemoer, L., Lithgo, R.M., Ni, X., Thompson, W., Wang, S., Wild, C., Williams, E.P., Winokan, M., Walsh, M.A., von Delft, F.

Description: Crystal structure of SARS-CoV-2 NSP3 Macrodomain in complex with ASAP-0000753-001
[[Category: Unreleased Structures]]
[[Category: Balcomb, B.H]]
[[Category: Williams, E.P]]
[[Category: Chandran, A.V]]
[[Category: Lithgo, R.M]]
[[Category: Godoy, A.S]]
[[Category: Fearon, D]]
[[Category: Walsh, M.A]]
[[Category: Wang, S]]
[[Category: Thompson, W]]
[[Category: Fairhead, M]]
[[Category: Von Delft, F]]
[[Category: Marples, P.G]]
[[Category: Koekemoer, L]]
[[Category: Wild, C]]
[[Category: Ni, X]]
[[Category: Aschenbrenner, J.C]]
[[Category: Winokan, M]]
[[Category: Tomlinson, C.W.E]]

7gzi - Revision history

OCA at 05:14, 15 May 2024

OCA at 08:56, 27 March 2024

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

OCA: New page: '''Unreleased structure''' The entry 7gzi is ON HOLD until sometime in the future Authors: Aschenbrenner, J.C., Fearon, D., Tomlinson, C.W.E., Marples, P.G., Fairhead, M., Balcomb, B.H....