2acf - Revision history

OCA at 09:12, 14 February 2024

2024-02-14T09:12:24Z

←Older revision		Revision as of 09:12, 14 February 2024
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	<StructureSection load='2acf' size='340' side='right'caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='2acf' size='340' side='right'caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Cvhst Cvhst~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ACF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/SARS_coronavirus_Tor2 SARS coronavirus Tor2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ACF FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 1.4Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</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=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [https://pdbe.org/2acf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [https://www.ebi.ac.uk/pdbsum/2acf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2acf ProSAT], [https://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</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=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [https://pdbe.org/2acf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [https://www.ebi.ac.uk/pdbsum/2acf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2acf ProSAT], [https://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/R1AB_SARS R1AB_SARS] Multifunctional protein involved in the transcription and replication of viral RNAs. Contains the proteinases responsible for the cleavages of the polyprotein. 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 (PubMed:23035226). May disrupt nuclear pore function by binding and displacing host NUP93 (PubMed:30943371).<ref>PMID:23035226</ref> <ref>PMID:30943371</ref> 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.<ref>PMID:19640993</ref> 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 (PubMed:17692280). Plays a role in host membrane rearrangement that leads to creation of cytoplasmic double-membrane vesicles (DMV) necessary for viral replication. Nsp3, nsp4 and nsp6 together are sufficient to form DMV (PubMed:24410069). Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF3 (PubMed:19369340, PubMed:24622840). Prevents also host NF-kappa-B signaling.<ref>PMID:16271890</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> <ref>PMID:24622840</ref> <ref>PMID:24410069</ref> Plays a role in host membrane rearrangement that leads to creation of cytoplasmic double-membrane vesicles (DMV) necessary for viral replication. Alone appears incapable to induce membrane curvature, but together with nsp3 is able to induce paired membranes. Nsp3, nsp4 and nsp6 together are sufficient to form DMV.<ref>PMID:23943763</ref> <ref>PMID:24410069</ref> 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). May cleave host ATP6V1G1 thereby modifying host vacuoles intracellular pH.[PROSITE-ProRule:PRU00772]<ref>PMID:16226257</ref> Plays a role in host membrane rearrangement that leads to creation of cytoplasmic double-membrane vesicles (DMV) necessary for viral replication. Nsp3, nsp4 and nsp6 together are sufficient to form DMV (PubMed:24410069). 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 (PubMed:24991833).<ref>PMID:24991833</ref> <ref>PMID:24410069</ref> 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.<ref>PMID:22039154</ref> 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.<ref>PMID:22039154</ref> May participate in viral replication by acting as a ssRNA-binding protein.<ref>PMID:19153232</ref> 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.<ref>PMID:22635272</ref> Responsible for replication and transcription of the viral RNA genome.<ref>PMID:22791111</ref> 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.<ref>PMID:12917423</ref> <ref>PMID:22615777</ref> 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 (PubMed:16549795, PubMed:20421945, PubMed:22635272). Acts as a proofreading exoribonuclease for RNA replication, thereby lowering The sensitivity of the virus to RNA mutagens (PubMed:23966862, PubMed:29511076, PubMed:21593585).<ref>PMID:16549795</ref> <ref>PMID:20421945</ref> <ref>PMID:21593585</ref> <ref>PMID:22635272</ref> <ref>PMID:23966862</ref> <ref>PMID:29511076</ref> Mn(2+)-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond. 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.<ref>PMID:18417574</ref> <ref>PMID:20421945</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2acf ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2acf ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	The crystal structure of a conserved domain of nonstructural protein 3 (nsP3) from severe acute respiratory syndrome coronavirus (SARS-CoV) has been solved by single-wavelength anomalous dispersion to 1.4 A resolution. The structure of this "X" domain, seen in many single-stranded RNA viruses, reveals a three-layered alpha/beta/alpha core with a macro-H2A-like fold. The putative active site is a solvent-exposed cleft that is conserved in its three structural homologs, yeast Ymx7, Archeoglobus fulgidus AF1521, and Er58 from E. coli. Its sequence is similar to yeast YBR022W (also known as Poa1P), a known phosphatase that acts on ADP-ribose-1''-phosphate (Appr-1''-p). The SARS nsP3 domain readily removes the 1'' phosphate group from Appr-1''-p in in vitro assays, confirming its phosphatase activity. Sequence and structure comparison of all known macro-H2A domains combined with available functional data suggests that proteins of this superfamily form an emerging group of nucleotide phosphatases that dephosphorylate Appr-1''-p.
-
-	Structural basis of severe acute respiratory syndrome coronavirus ADP-ribose-1''-phosphate dephosphorylation by a conserved domain of nsP3.,Saikatendu KS, Joseph JS, Subramanian V, Clayton T, Griffith M, Moy K, Velasquez J, Neuman BW, Buchmeier MJ, Stevens RC, Kuhn P Structure. 2005 Nov;13(11):1665-75. PMID:16271890<ref>PMID:16271890</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 2acf" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Cvhst]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Buchmeier, M J~~]]	+	[[Category: SARS coronavirus Tor2]]
-	[[Category: ~~Structural genomic~~]]	+	[[Category: Buchmeier MJ]]
-	[[Category: Joseph~~, J S~~]]	+	[[Category: Joseph JS]]
-	[[Category: Kuhn, P]]	+	[[Category: Kuhn P]]
-	[[Category: Neuman~~, B W~~]]	+	[[Category: Neuman BW]]
-	[[Category: Saikatendu~~, K S~~]]	+	[[Category: Saikatendu KS]]
-	[[Category: Stevens~~, R C~~]]	+	[[Category: Stevens RC]]
-	[[Category: Subramanian, V]]	+	[[Category: Subramanian V]]
-	~~[[Category: Adrp domain]]~~	+
-	~~[[Category: Appr-1-p phosphatase]]~~	+
-	~~[[Category: Jcsg]]~~	+
-	~~[[Category: PSI, Protein structure initiative]]~~	+
-	~~[[Category: Sars nsp-3]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 09:38, 5 May 2021

2021-05-05T09:38:58Z

←Older revision		Revision as of 09:38, 5 May 2021
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	<StructureSection load='2acf' size='340' side='right'caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='2acf' size='340' side='right'caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Cvhst Cvhst]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2ACF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Cvhst Cvhst]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2ACF FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [~~http~~://pdbe.org/2acf PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2acf PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2acf ProSAT], [~~http~~://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</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=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [https://pdbe.org/2acf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [https://www.ebi.ac.uk/pdbsum/2acf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2acf ProSAT], [https://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 09:11, 24 July 2019

2019-07-24T09:11:27Z

←Older revision		Revision as of 09:11, 24 July 2019
Line 1:		Line 1:

	==NMR STRUCTURE OF SARS-COV NON-STRUCTURAL PROTEIN NSP3A (SARS1) FROM SARS CORONAVIRUS==		==NMR STRUCTURE OF SARS-COV NON-STRUCTURAL PROTEIN NSP3A (SARS1) FROM SARS CORONAVIRUS==
-	<StructureSection load='2acf' size='340' side='right' caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>	+	<StructureSection load='2acf' size='340' side='right'caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cvhst Cvhst]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ACF FirstGlance]. <br>		<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cvhst Cvhst]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ACF FirstGlance]. <br>
Line 11:		Line 11:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ac/2acf_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ac/2acf_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
Line 31:		Line 31:
	</StructureSection>		</StructureSection>
	[[Category: Cvhst]]		[[Category: Cvhst]]
		+	[[Category: Large Structures]]
	[[Category: Buchmeier, M J]]		[[Category: Buchmeier, M J]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 10:52, 12 October 2017

2017-10-12T10:52:42Z

←Older revision		Revision as of 10:52, 12 October 2017
Line 1:		Line 1:
		+
	==NMR STRUCTURE OF SARS-COV NON-STRUCTURAL PROTEIN NSP3A (SARS1) FROM SARS CORONAVIRUS==		==NMR STRUCTURE OF SARS-COV NON-STRUCTURAL PROTEIN NSP3A (SARS1) FROM SARS CORONAVIRUS==
	<StructureSection load='2acf' size='340' side='right' caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='2acf' size='340' side='right' caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>
Line 4:		Line 5:
	<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cvhst Cvhst]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ACF FirstGlance]. <br>		<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cvhst Cvhst]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ACF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [http://pdbe.org/2acf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [http://www.ebi.ac.uk/pdbsum/2acf PDBsum], [http://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [http://pdbe.org/2acf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [http://www.ebi.ac.uk/pdbsum/2acf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2acf ProSAT], [http://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==

OCA at 11:15, 8 February 2016

2016-02-08T11:15:04Z

←Older revision		Revision as of 11:15, 8 February 2016
Line 14:		Line 14:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
-	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].	+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2acf ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 11:00, 10 September 2015

2015-09-10T11:00:20Z

←Older revision		Revision as of 11:00, 10 September 2015
Line 2:		Line 2:
	<StructureSection load='2acf' size='340' side='right' caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>		<StructureSection load='2acf' size='340' side='right' caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Sars_coronavirus_tor2 Sars coronavirus tor2~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ACF FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Cvhst Cvhst]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ACF FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [http://www.ebi.ac.uk/pdbsum/2acf PDBsum], [http://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [http://pdbe.org/2acf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [http://www.ebi.ac.uk/pdbsum/2acf PDBsum], [http://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 24:		Line 24:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2acf" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Sars coronavirus tor2~~]]	+	[[Category: Cvhst]]
	[[Category: Buchmeier, M J]]		[[Category: Buchmeier, M J]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]

OCA at 10:12, 8 January 2015

2015-01-08T10:12:22Z

←Older revision		Revision as of 10:12, 8 January 2015
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Sars_coronavirus_tor2 Sars coronavirus tor2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ACF FirstGlance]. <br>		<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Sars_coronavirus_tor2 Sars coronavirus tor2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ACF FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [http://www.ebi.ac.uk/pdbsum/2acf PDBsum], [http://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [http://www.ebi.ac.uk/pdbsum/2acf PDBsum], [http://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</StructureSection>		</StructureSection>
	[[Category: Sars coronavirus tor2]]		[[Category: Sars coronavirus tor2]]
-	[[Category: Buchmeier, M J.]]	+	[[Category: Buchmeier, M J]]
-	[[Category: ~~JCSG, Joint Center for~~ Structural ~~Genomics.~~]]	+	[[Category: Structural genomic]]
-	[[Category: Joseph, J S.]]	+	[[Category: Joseph, J S]]
-	[[Category: Kuhn, P.]]	+	[[Category: Kuhn, P]]
-	[[Category: Neuman, B W.]]	+	[[Category: Neuman, B W]]
-	[[Category: Saikatendu, K S.]]	+	[[Category: Saikatendu, K S]]
-	[[Category: Stevens, R C.]]	+	[[Category: Stevens, R C]]
-	[[Category: Subramanian, V.]]	+	[[Category: Subramanian, V]]
	[[Category: Adrp domain]]		[[Category: Adrp domain]]
	[[Category: Appr-1-p phosphatase]]		[[Category: Appr-1-p phosphatase]]
	[[Category: Jcsg]]		[[Category: Jcsg]]
-	[[Category: ~~Joint center for structural genomic]]~~	+	[[Category: PSI, Protein structure initiative]]
-	~~[[Category:~~ Protein structure initiative]]	+
-	~~[[Category: Psi-2~~]]	+
	[[Category: Sars nsp-3]]		[[Category: Sars nsp-3]]
-	[[Category: Structural genomic]]
	[[Category: Viral protein]]		[[Category: Viral protein]]

OCA at 00:56, 30 September 2014

2014-09-30T00:56:57Z

←Older revision		Revision as of 00:56, 30 September 2014
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-	[[~~Image~~:2acf.~~png\|left~~\|200px]]	+	==NMR STRUCTURE OF SARS-COV NON-STRUCTURAL PROTEIN NSP3A (SARS1) FROM SARS CORONAVIRUS==
		+	<StructureSection load='2acf' size='340' side='right' caption='[[2acf]], [[Resolution\|resolution]] 1.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2acf]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Sars_coronavirus_tor2 Sars coronavirus tor2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2ACF FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene><br>
		+	<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2acf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2acf OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2acf RCSB], [http://www.ebi.ac.uk/pdbsum/2acf PDBsum], [http://www.topsan.org/Proteins/JCSG/2acf TOPSAN]</span></td></tr>
		+	<table>
		+	== Evolutionary Conservation ==
		+	[[Image:Consurf_key_small.gif\|200px\|right]]
		+	Check<jmol>
		+	<jmolCheckbox>
		+	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ac/2acf_consurf.spt"</scriptWhenChecked>
		+	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
		+	<text>to colour the structure by Evolutionary Conservation</text>
		+	</jmolCheckbox>
		+	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
		+	<div style="clear:both"></div>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The crystal structure of a conserved domain of nonstructural protein 3 (nsP3) from severe acute respiratory syndrome coronavirus (SARS-CoV) has been solved by single-wavelength anomalous dispersion to 1.4 A resolution. The structure of this "X" domain, seen in many single-stranded RNA viruses, reveals a three-layered alpha/beta/alpha core with a macro-H2A-like fold. The putative active site is a solvent-exposed cleft that is conserved in its three structural homologs, yeast Ymx7, Archeoglobus fulgidus AF1521, and Er58 from E. coli. Its sequence is similar to yeast YBR022W (also known as Poa1P), a known phosphatase that acts on ADP-ribose-1''-phosphate (Appr-1''-p). The SARS nsP3 domain readily removes the 1'' phosphate group from Appr-1''-p in in vitro assays, confirming its phosphatase activity. Sequence and structure comparison of all known macro-H2A domains combined with available functional data suggests that proteins of this superfamily form an emerging group of nucleotide phosphatases that dephosphorylate Appr-1''-p.

-	~~{{STRUCTURE_2acf\| PDB=2acf \| SCENE= }}~~	+	Structural basis of severe acute respiratory syndrome coronavirus ADP-ribose-1''-phosphate dephosphorylation by a conserved domain of nsP3.,Saikatendu KS, Joseph JS, Subramanian V, Clayton T, Griffith M, Moy K, Velasquez J, Neuman BW, Buchmeier MJ, Stevens RC, Kuhn P Structure. 2005 Nov;13(11):1665-75. PMID:16271890<ref>PMID:16271890</ref>

-	~~===NMR STRUCTURE OF SARS-COV NON-STRUCTURAL PROTEIN NSP3A (SARS1) FROM SARS CORONAVIRUS===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_16271890}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2acf]] is~~ a ~~4 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Sars_coronavirus_tor2 Sars coronavirus tor2]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:016271890<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Sars coronavirus tor2]]		[[Category: Sars coronavirus tor2]]
	[[Category: Buchmeier, M J.]]		[[Category: Buchmeier, M J.]]

OCA: Protected "2acf" [edit=sysop:move=sysop]

2013-01-06T10:15:20Z

Protected "2acf" [edit=sysop:move=sysop]

←Older revision

Revision as of 10:15, 6 January 2013

OCA at 10:15, 6 January 2013

2013-01-06T10:15:14Z

←Older revision		Revision as of 10:15, 6 January 2013
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-	{{Seed}}
	[[Image:2acf.png\|left\|200px]]		[[Image:2acf.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2acf", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2acf\| PDB=2acf \| SCENE= }}		{{STRUCTURE_2acf\| PDB=2acf \| SCENE= }}

	===NMR STRUCTURE OF SARS-COV NON-STRUCTURAL PROTEIN NSP3A (SARS1) FROM SARS CORONAVIRUS===		===NMR STRUCTURE OF SARS-COV NON-STRUCTURAL PROTEIN NSP3A (SARS1) FROM SARS CORONAVIRUS===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_16271890}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 16271890 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_16271890}}		{{ABSTRACT_PUBMED_16271890}}

	==About this Structure==		==About this Structure==
-	~~2ACF~~ is a 4 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Sars_coronavirus_tor2 Sars coronavirus tor2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA].	+	[[2acf]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Sars_coronavirus_tor2 Sars coronavirus tor2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2ACF OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~16271890~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:016271890</ref><references group="xtra"/>
	[[Category: Sars coronavirus tor2]]		[[Category: Sars coronavirus tor2]]
	[[Category: Buchmeier, M J.]]		[[Category: Buchmeier, M J.]]
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	[[Category: Structural genomic]]		[[Category: Structural genomic]]
	[[Category: Viral protein]]		[[Category: Viral protein]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 28 12:08:29 2010''