8fwn - Revision history

OCA at 10:33, 25 October 2023

2023-10-25T10:33:50Z

←Older revision		Revision as of 10:33, 25 October 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[8fwn]] 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=8FWN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8FWN FirstGlance]. <br>		<table><tr><td colspan='2'>[[8fwn]] 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=8FWN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8FWN FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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]] 1.5Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=8fwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8fwn OCA], [https://pdbe.org/8fwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8fwn RCSB], [https://www.ebi.ac.uk/pdbsum/8fwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8fwn ProSAT]</span></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=8fwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8fwn OCA], [https://pdbe.org/8fwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8fwn RCSB], [https://www.ebi.ac.uk/pdbsum/8fwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8fwn ProSAT]</span></td></tr>
	</table>		</table>

OCA at 07:00, 18 May 2023

2023-05-18T07:00:16Z

←Older revision		Revision as of 07:00, 18 May 2023
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 8fwn ~~is ON HOLD~~	+	==Crystal structure of SARS-CoV-2 papain-like protease C111S mutant==
-		+	<StructureSection load='8fwn' size='340' side='right'caption='[[8fwn]], [[Resolution\|resolution]] 1.50Å' scene=''>
-	~~Authors~~: ~~Bezerra, E~~.H.S., ~~Soprano~~, A.S., ~~Tonoli, C~~.C.C., ~~Prado~~, P.F.V., ~~da Silva~~, J.C., ~~Franchini~~, K.G., ~~Trivella~~, D.B.B., ~~Benedetti~~, C.E.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[8fwn]] 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=8FWN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8FWN FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure~~ of ~~SARS~~-~~CoV~~-2 ~~papain~~-~~like protease C111S mutant~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=8fwn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8fwn OCA], [https://pdbe.org/8fwn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8fwn RCSB], [https://www.ebi.ac.uk/pdbsum/8fwn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8fwn ProSAT]</span></td></tr>
-	[[Category: ~~Benedetti, C.E~~]]	+	</table>
-	[[Category: ~~Da Silva, J.C~~]]	+	== Function ==
-	[[Category: ~~Trivella, D.B.B~~]]	+	[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: Franchini~~, K.G~~]]	+	== References ==
-	[[Category: Prado~~, P.F.V~~]]	+	<references/>
-	[[Category: ~~Bezerra, E.H.S~~]]	+	__TOC__
-	[[Category: Tonoli~~, C.C.C~~]]	+	</StructureSection>
-	[[Category: ~~Soprano, A.S~~]]	+	[[Category: Large Structures]]
		+	[[Category: Severe acute respiratory syndrome coronavirus 2]]
		+	[[Category: Benedetti CE]]
		+	[[Category: Bezerra EHS]]
		+	[[Category: Franchini KG]]
		+	[[Category: Prado PFV]]
		+	[[Category: Soprano AS]]
		+	[[Category: Tonoli CCC]]
		+	[[Category: Trivella DBB]]
		+	[[Category: Da Silva JC]]

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

2023-02-01T09:26:54Z

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

←Older revision

Revision as of 09:26, 1 February 2023

OCA: New page: '''Unreleased structure''' The entry 8fwn is ON HOLD Authors: Bezerra, E.H.S., Soprano, A.S., Tonoli, C.C.C., Prado, P.F.V., da Silva, J.C., Franchini, K.G., Trivella, D.B.B., Benedetti...

2023-02-01T09:26:50Z

New page: '''Unreleased structure''' The entry 8fwn is ON HOLD Authors: Bezerra, E.H.S., Soprano, A.S., Tonoli, C.C.C., Prado, P.F.V., da Silva, J.C., Franchini, K.G., Trivella, D.B.B., Benedetti...

New page

'''Unreleased structure'''

The entry 8fwn is ON HOLD

Authors: Bezerra, E.H.S., Soprano, A.S., Tonoli, C.C.C., Prado, P.F.V., da Silva, J.C., Franchini, K.G., Trivella, D.B.B., Benedetti, C.E.

Description: Crystal structure of SARS-CoV-2 papain-like protease C111S mutant
[[Category: Unreleased Structures]]
[[Category: Benedetti, C.E]]
[[Category: Da Silva, J.C]]
[[Category: Trivella, D.B.B]]
[[Category: Franchini, K.G]]
[[Category: Prado, P.F.V]]
[[Category: Bezerra, E.H.S]]
[[Category: Tonoli, C.C.C]]
[[Category: Soprano, A.S]]