3f9h - Revision history

OCA at 00:29, 28 December 2023

2023-12-28T00:29:50Z

←Older revision		Revision as of 00:29, 28 December 2023
Line 3:		Line 3:
	<StructureSection load='3f9h' size='340' side='right'caption='[[3f9h]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='3f9h' size='340' side='right'caption='[[3f9h]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3f9h]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3F9H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3f9h]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Severe_acute_respiratory_syndrome-related_coronavirus Severe acute respiratory syndrome-related coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3F9H FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~<div style='overflow: auto; max~~-~~height: 3em;'>[[3f9e\|3f9e]]~~, [[~~3f9f~~\|~~3f9f~~]]~~, [[3f9g\|3f9g]]</div>~~</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]] 2.9Å</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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [https://pdbe.org/3f9h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [https://www.ebi.ac.uk/pdbsum/3f9h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3f9h 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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [https://pdbe.org/3f9h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [https://www.ebi.ac.uk/pdbsum/3f9h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3f9h ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~R1A_CVHSA R1A_CVHSA]~~] The ~~papain~~-~~like proteinase (PL~~-~~PRO~~) ~~is responsible~~ for the cleavages located at the N-terminus of 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. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host ~~IRF~~-3.<ref>PMID:~~17024178~~</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> ~~The main proteinase 3CL~~-~~PRO is responsible~~ for ~~the majority of cleavages as it cleaves~~ the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-\|-[SGACN]~~. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK (By similarity)~~. Also ~~contains~~ an ADP-ribose-1''-phosphate (ADRP)~~-binding function~~.<ref>PMID:~~17024178~~</ref> <ref>PMID:~~17692280~~</ref> <ref>PMID:~~19369340~~</ref> ~~Nsp7-nsp8~~ hexadecamer may ~~possibly confer processivity to the polymerase, maybe~~ by ~~binding to dsRNA or by producing~~ primers ~~utilized by the latter~~.<ref>PMID:~~17024178~~</ref> <ref>PMID:~~17692280</ref> <ref>PMID:19369340~~</ref> ~~Nsp9 is~~ a ssRNA-binding protein.<ref>PMID:~~17024178~~</ref> <ref>PMID:~~17692280~~</ref> ~~<ref>PMID:19369340</ref>~~	+	[https://www.uniprot.org/uniprot/R1A_SARS R1A_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>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 36:		Line 36:
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hu, T]]	+	[[Category: Severe acute respiratory syndrome-related coronavirus]]
-	[[Category: Jiang, H]]	+	[[Category: Hu T]]
-	[[Category: Li, L]]	+	[[Category: Jiang H]]
-	[[Category: Shen, X]]	+	[[Category: Li L]]
-	~~[[Category: Cytoplasm]]~~	+	[[Category: Shen X]]
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Membrane]]~~	+
-	~~[[Category: Metal-binding]]~~	+
-	~~[[Category: Protease]]~~	+
-	~~[[Category: Ribosomal frameshifting]]~~	+
-	~~[[Category: Rna-binding]]~~	+
-	~~[[Category: Thiol protease]]~~	+
-	~~[[Category: Transmembrane]]~~	+
-	~~[[Category: Zinc]]~~	+
-	~~[[Category: Zinc-finger~~]]	+

OCA at 07:38, 10 November 2021

2021-11-10T07:38:26Z

←Older revision		Revision as of 07:38, 10 November 2021
Line 1:		Line 1:

	==Crystal Structure of the F140A mutant of SARS-Coronovirus 3C-like Protease at pH 7.6==		==Crystal Structure of the F140A mutant of SARS-Coronovirus 3C-like Protease at pH 7.6==
-	<StructureSection load='3f9h' size='340' side='right' caption='[[3f9h]], [[Resolution\|resolution]] 2.90Å' scene=''>	+	<StructureSection load='3f9h' size='340' side='right'caption='[[3f9h]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3f9h]] is a 2 chain structure ~~with sequence from [http://en.wikipedia.org/wiki/Cvhsa Cvhsa]~~. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3F9H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3f9h]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3F9H FirstGlance]. <br>
-	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3f9e\|3f9e]], [[3f9f\|3f9f]], [[3f9g\|3f9g]]</td>~~</tr>~~	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3f9e\|3f9e]], [[3f9f\|3f9f]], [[3f9g\|3f9g]]</div></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">1a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=227859 CVHSA])~~</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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [https://pdbe.org/3f9h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [https://www.ebi.ac.uk/pdbsum/3f9h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3f9h ProSAT]</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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [~~http~~://pdbe.org/3f9h PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3f9h PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3f9h ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/R1A_CVHSA R1A_CVHSA]] The papain-like proteinase (PL-PRO) is responsible for the cleavages located at the N-terminus of 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. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF-3.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> The main proteinase 3CL-PRO is responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-\|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK (By similarity). Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> Nsp9 is a ssRNA-binding protein.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref>	+	[[https://www.uniprot.org/uniprot/R1A_CVHSA R1A_CVHSA]] The papain-like proteinase (PL-PRO) is responsible for the cleavages located at the N-terminus of 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. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF-3.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> The main proteinase 3CL-PRO is responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-\|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK (By similarity). Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> Nsp9 is a ssRNA-binding protein.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 31:		Line 30:

	==See Also==		==See Also==
-	*[[~~SARS Coronavirus Main Proteinase~~\|~~SARS Coronavirus Main Proteinase~~]]	+	*[[Virus protease 3D structures\|Virus protease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Cvhsa~~]]	+	[[Category: Large Structures]]
	[[Category: Hu, T]]		[[Category: Hu, T]]
	[[Category: Jiang, H]]		[[Category: Jiang, H]]

OCA at 07:19, 5 December 2018

2018-12-05T07:19:13Z

←Older revision		Revision as of 07:19, 5 December 2018
Line 1:		Line 1:
		+
	==Crystal Structure of the F140A mutant of SARS-Coronovirus 3C-like Protease at pH 7.6==		==Crystal Structure of the F140A mutant of SARS-Coronovirus 3C-like Protease at pH 7.6==
	<StructureSection load='3f9h' size='340' side='right' caption='[[3f9h]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='3f9h' size='340' side='right' caption='[[3f9h]], [[Resolution\|resolution]] 2.90Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3f9e\|3f9e]], [[3f9f\|3f9f]], [[3f9g\|3f9g]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3f9e\|3f9e]], [[3f9f\|3f9f]], [[3f9g\|3f9g]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">1a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=227859 CVHSA])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">1a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=227859 CVHSA])</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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [http://pdbe.org/3f9h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [http://www.ebi.ac.uk/pdbsum/3f9h PDBsum]</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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [http://pdbe.org/3f9h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [http://www.ebi.ac.uk/pdbsum/3f9h PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3f9h ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 13:		Line 14:
	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
-	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f9/3f9h_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/f9/3f9h_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 40:		Line 41:
	[[Category: Li, L]]		[[Category: Li, L]]
	[[Category: Shen, X]]		[[Category: Shen, X]]
		+	[[Category: Cytoplasm]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Membrane]]		[[Category: Membrane]]
	[[Category: Metal-binding]]		[[Category: Metal-binding]]
	[[Category: Protease]]		[[Category: Protease]]
		+	[[Category: Ribosomal frameshifting]]
	[[Category: Rna-binding]]		[[Category: Rna-binding]]
	[[Category: Thiol protease]]		[[Category: Thiol protease]]
	[[Category: Transmembrane]]		[[Category: Transmembrane]]
		+	[[Category: Zinc]]
	[[Category: Zinc-finger]]		[[Category: Zinc-finger]]

OCA at 05:27, 8 February 2016

2016-02-08T05:27:01Z

←Older revision		Revision as of 05:27, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='3f9h' size='340' side='right' caption='[[3f9h]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='3f9h' size='340' side='right' caption='[[3f9h]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3f9h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Sars_coronavirus Sars coronavirus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3F9H FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3f9h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Cvhsa Cvhsa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3F9H FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3f9e\|3f9e]], [[3f9f\|3f9f]], [[3f9g\|3f9g]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3f9e\|3f9e]], [[3f9f\|3f9f]], [[3f9g\|3f9g]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">1a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=227859 ~~SARS coronavirus~~])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">1a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=227859 CVHSA])</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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [http://www.ebi.ac.uk/pdbsum/3f9h PDBsum]</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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [http://pdbe.org/3f9h PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [http://www.ebi.ac.uk/pdbsum/3f9h PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 17:
	<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=3f9h ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 27:		Line 27:
	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 3f9h" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 34:		Line 35:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Sars coronavirus~~]]	+	[[Category: Cvhsa]]
	[[Category: Hu, T]]		[[Category: Hu, T]]
	[[Category: Jiang, H]]		[[Category: Jiang, H]]

OCA at 20:57, 24 December 2014

2014-12-24T20:57:26Z

←Older revision		Revision as of 20:57, 24 December 2014
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3f9h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Sars_coronavirus Sars coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3F9H FirstGlance]. <br>		<table><tr><td colspan='2'>[[3f9h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Sars_coronavirus Sars coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3F9H FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3f9e\|3f9e]], [[3f9f\|3f9f]], [[3f9g\|3f9g]]</td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3f9e\|3f9e]], [[3f9f\|3f9f]], [[3f9g\|3f9g]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">1a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=227859 SARS coronavirus])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">1a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=227859 SARS coronavirus])</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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [http://www.ebi.ac.uk/pdbsum/3f9h PDBsum]</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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [http://www.ebi.ac.uk/pdbsum/3f9h PDBsum]</span></td></tr>
-	<table>	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/R1A_CVHSA R1A_CVHSA]] The papain-like proteinase (PL-PRO) is responsible for the cleavages located at the N-terminus of 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. Antagonizes innate immune induction of type I interferon by blocking the phosphorylation, dimerization and subsequent nuclear translocation of host IRF-3.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> The main proteinase 3CL-PRO is responsible for the majority of cleavages as it cleaves the C-terminus of replicase polyprotein at 11 sites. Recognizes substrates containing the core sequence [ILMVF]-Q-\|-[SGACN]. Inhibited by the substrate-analog Cbz-Val-Asn-Ser-Thr-Leu-Gln-CMK (By similarity). Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref> Nsp9 is a ssRNA-binding protein.<ref>PMID:17024178</ref> <ref>PMID:17692280</ref> <ref>PMID:19369340</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 35:
	</StructureSection>		</StructureSection>
	[[Category: Sars coronavirus]]		[[Category: Sars coronavirus]]
-	[[Category: Hu, T.]]	+	[[Category: Hu, T]]
-	[[Category: Jiang, H.]]	+	[[Category: Jiang, H]]
-	[[Category: Li, L.]]	+	[[Category: Li, L]]
-	[[Category: Shen, X.]]	+	[[Category: Shen, X]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Membrane]]		[[Category: Membrane]]

OCA at 12:10, 29 September 2014

2014-09-29T12:10:31Z

←Older revision		Revision as of 12:10, 29 September 2014
Line 1:		Line 1:
-	[[~~Image:~~3f9h.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of the F140A mutant of SARS-Coronovirus 3C-like Protease at pH 7.6==
		+	<StructureSection load='3f9h' size='340' side='right' caption='[[3f9h]], [[Resolution\|resolution]] 2.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3f9h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Sars_coronavirus Sars coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3F9H FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3f9e\|3f9e]], [[3f9f\|3f9f]], [[3f9g\|3f9g]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">1a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=227859 SARS coronavirus])</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=3f9h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3f9h OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3f9h RCSB], [http://www.ebi.ac.uk/pdbsum/3f9h PDBsum]</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/f9/3f9h_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 3C-like protease of SARS coronavirus (SARS-CoV 3CL(pro)) is vital for SARS-CoV replication and is a promising drug target. It has been extensively proved that only the dimeric enzyme is active. Here we discovered that two adjacent mutations (Ser139_Ala and Phe140_Ala) on the dimer interface resulted in completely different crystal structures of the enzyme, demonstrating the distinct roles of these two residues in maintaining the active conformation of SARS-CoV 3CL(pro). S139A is a monomer that is structurally similar to the two reported monomers G11A and R298A. However, this mutant still retains a small fraction of dimer in solution, which might account for its remaining activity. F140A is a dimer with the most collapsed active pocket discovered so far, well-reflecting the stabilizing role of this residue. Moreover, a plausible dimerization mechanism was also deduced from structural analysis. Our work is expected to provide insight on the dimerization-function relationship of SARS-CoV 3CL(pro).

-	~~{{STRUCTURE_3f9h\| PDB=3f9h \| SCENE= }}~~	+	Two adjacent mutations on the dimer interface of SARS coronavirus 3C-like protease cause different conformational changes in crystal structure.,Hu T, Zhang Y, Li L, Wang K, Chen S, Chen J, Ding J, Jiang H, Shen X Virology. 2009 Jun 5;388(2):324-34. Epub 2009 May 5. PMID:19409595<ref>PMID:19409595</ref>

-	~~===Crystal Structure~~ of the ~~F140A mutant~~ of ~~SARS-Coronovirus 3C-like Protease at pH 7~~.~~6===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19409595}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3f9h]] is a 2 chain structure with sequence from [http:~~/~~/en.wikipedia.org/wiki/Sars_coronavirus Sars coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA].~~	+

	==See Also==		==See Also==
	*[[SARS Coronavirus Main Proteinase\|SARS Coronavirus Main Proteinase]]		*[[SARS Coronavirus Main Proteinase\|SARS Coronavirus Main Proteinase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:019409595<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Sars coronavirus]]		[[Category: Sars coronavirus]]
	[[Category: Hu, T.]]		[[Category: Hu, T.]]

OCA at 09:03, 20 October 2012

2012-10-20T09:03:56Z

←Older revision		Revision as of 09:03, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3f9h]] is a 2 chain structure ~~of [[SARS Coronavirus Main Proteinase]]~~ with sequence from [http://en.wikipedia.org/wiki/Sars_coronavirus Sars coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA].	+	[[3f9h]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Sars_coronavirus Sars coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA].

	==See Also==		==See Also==

OCA: Protected "3f9h" [edit=sysop:move=sysop]

2012-07-25T21:39:53Z

Protected "3f9h" [edit=sysop:move=sysop]

←Older revision

Revision as of 21:39, 25 July 2012

OCA at 21:39, 25 July 2012

2012-07-25T21:39:51Z

←Older revision		Revision as of 21:39, 25 July 2012
Line 1:		Line 1:
-	~~{{Seed}}~~	+	[[Image:3f9h.png\|left\|200px]]
-	[[Image:3f9h.~~jpg~~\|left\|200px]]	+

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3f9h", 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_3f9h\| PDB=3f9h \| SCENE= }}		{{STRUCTURE_3f9h\| PDB=3f9h \| SCENE= }}

	===Crystal Structure of the F140A mutant of SARS-Coronovirus 3C-like Protease at pH 7.6===		===Crystal Structure of the F140A mutant of SARS-Coronovirus 3C-like Protease at pH 7.6===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19409595}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19409595 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_19409595}}		{{ABSTRACT_PUBMED_19409595}}

	==About this Structure==		==About this Structure==
-	~~3F9H~~ is a 2 ~~chains~~ structure of ~~sequences~~ from [http://en.wikipedia.org/wiki/Sars_coronavirus Sars coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA].	+	[[3f9h]] is a 2 chain structure of [[SARS Coronavirus Main Proteinase]] with sequence from [http://en.wikipedia.org/wiki/Sars_coronavirus Sars coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA].
		+
		+	==See Also==
		+	*[[SARS Coronavirus Main Proteinase\|SARS Coronavirus Main Proteinase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19409595~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019409595</ref><references group="xtra"/>
	[[Category: Sars coronavirus]]		[[Category: Sars coronavirus]]
	[[Category: Hu, T.]]		[[Category: Hu, T.]]
Line 29:		Line 20:
	[[Category: Li, L.]]		[[Category: Li, L.]]
	[[Category: Shen, X.]]		[[Category: Shen, X.]]
-	[[Category: Cytoplasm]]
	[[Category: Hydrolase]]		[[Category: Hydrolase]]
	[[Category: Membrane]]		[[Category: Membrane]]
	[[Category: Metal-binding]]		[[Category: Metal-binding]]
	[[Category: Protease]]		[[Category: Protease]]
-	[[Category: Ribosomal frameshifting]]
	[[Category: Rna-binding]]		[[Category: Rna-binding]]
	[[Category: Thiol protease]]		[[Category: Thiol protease]]
	[[Category: Transmembrane]]		[[Category: Transmembrane]]
-	[[Category: Zinc]]
	[[Category: Zinc-finger]]		[[Category: Zinc-finger]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 30 09:13:23 2009''

OCA at 07:13, 30 September 2009

2009-09-30T07:13:24Z

←Older revision		Revision as of 07:13, 30 September 2009
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	{{Seed}}
		+	[[Image:3f9h.jpg\|left\|200px]]

-	The ~~entry 3f9h~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3f9h", 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_3f9h\| PDB=3f9h \| SCENE= }}

-	~~Authors: Hu, T., Li, L., Jiang, H., Shen, X~~.	+	===Crystal Structure of the F140A mutant of SARS-Coronovirus 3C-like Protease at pH 7.6===

-	Description: Crystal Structure of the F140A mutant of SARS-Coronovirus 3C-like Protease at pH 7.6

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Thu~~ Sep ~~3 15~~:16:54 2009''	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19409595}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19409595 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19409595}}
		+
		+	==About this Structure==
		+	3F9H is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Sars_coronavirus Sars coronavirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3F9H OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19409595</ref><references group="xtra"/>
		+	[[Category: Sars coronavirus]]
		+	[[Category: Hu, T.]]
		+	[[Category: Jiang, H.]]
		+	[[Category: Li, L.]]
		+	[[Category: Shen, X.]]
		+	[[Category: Cytoplasm]]
		+	[[Category: Hydrolase]]
		+	[[Category: Membrane]]
		+	[[Category: Metal-binding]]
		+	[[Category: Protease]]
		+	[[Category: Ribosomal frameshifting]]
		+	[[Category: Rna-binding]]
		+	[[Category: Thiol protease]]
		+	[[Category: Transmembrane]]
		+	[[Category: Zinc]]
		+	[[Category: Zinc-finger]]
		+
		+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 30 09:13:23 2009''