3ew5 - Revision history

OCA at 00:25, 28 December 2023

OCA — Thu, 28 Dec 2023 00:25:11 GMT

←Older revision		Revision as of 00:25, 28 December 2023
Line 3:		Line 3:
	<StructureSection load='3ew5' size='340' side='right'caption='[[3ew5]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='3ew5' size='340' side='right'caption='[[3ew5]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ew5]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Fcov Fcov~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=3EW5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ew5]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Feline_infectious_peritonitis_virus_(strain_79-1146) Feline infectious peritonitis virus (strain 79-1146)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EW5 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1GP:SN-GLYCEROL-1-PHOSPHATE'>1GP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 3.1Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eti\|3eti]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1GP:SN-GLYCEROL-1-PHOSPHATE'>1GP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [~~http~~://pdbe.org/3ew5 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3ew5 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3ew5 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=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [https://pdbe.org/3ew5 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [https://www.ebi.ac.uk/pdbsum/3ew5 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3ew5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/R1AB_FIPV R1AB_FIPV]] The replicase polyprotein of coronaviruses is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products. The papain-like proteinase 1 (PLP1) and papain-like proteinase 2 (PLP2) are responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PLP2 possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. PLP2 also antagonizes innate immune induction of type I interferon by blocking the nuclear translocation of host IRF-3 (By similarity). 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. Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function (By similarity). The helicase which contains a zinc finger structure displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity. ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G) (By similarity). The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction (By similarity). Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter (By similarity). Nsp9 is a ssRNA-binding protein (By similarity). NendoU is a Mn(2+)-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond (By similarity).	+	[https://www.uniprot.org/uniprot/R1AB_FIPV R1AB_FIPV] The replicase polyprotein of coronaviruses is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products. The papain-like proteinase 1 (PLP1) and papain-like proteinase 2 (PLP2) are responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PLP2 possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. PLP2 also antagonizes innate immune induction of type I interferon by blocking the nuclear translocation of host IRF-3 (By similarity). 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. Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function (By similarity). The helicase which contains a zinc finger structure displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity. ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G) (By similarity). The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction (By similarity). Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter (By similarity). Nsp9 is a ssRNA-binding protein (By similarity). NendoU is a Mn(2+)-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Fcov]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Manolaridis, I]]	+	[[Category: Manolaridis I]]
-	[[Category: Tucker~~, P A~~]]	+	[[Category: Tucker PA]]
-	[[Category: Wojdyla~~, J A]]~~	+	[[Category: Wojdyla JA]]
-	~~[[Category: Adrp]]~~	+
-	~~[[Category: Coronavirus]]~~	+
-	~~[[Category: Macro]]~~	+
-	~~[[Category: Rna binding protein]]~~	+
-	~~[[Category: X domain~~]]	+

OCA at 10:25, 9 September 2020

OCA — Wed, 09 Sep 2020 10:25:53 GMT

←Older revision		Revision as of 10:25, 9 September 2020
Line 1:		Line 1:

	==Structure of the tetragonal crystal form of X (ADRP) domain from FCoV==		==Structure of the tetragonal crystal form of X (ADRP) domain from FCoV==
-	<StructureSection load='3ew5' size='340' side='right' caption='[[3ew5]], [[Resolution\|resolution]] 3.10Å' scene=''>	+	<StructureSection load='3ew5' size='340' side='right'caption='[[3ew5]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ew5]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Fcov Fcov]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3EW5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ew5]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Fcov Fcov]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3EW5 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1GP:SN-GLYCEROL-1-PHOSPHATE'>1GP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1GP:SN-GLYCEROL-1-PHOSPHATE'>1GP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eti\|3eti]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eti\|3eti]]</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=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [http://pdbe.org/3ew5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ew5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ew5 ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [http://pdbe.org/3ew5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ew5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ew5 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Fcov]]		[[Category: Fcov]]
		+	[[Category: Large Structures]]
	[[Category: Manolaridis, I]]		[[Category: Manolaridis, I]]
	[[Category: Tucker, P A]]		[[Category: Tucker, P A]]

OCA at 21:45, 2 December 2018

OCA — Sun, 02 Dec 2018 21:45:04 GMT

←Older revision		Revision as of 21:45, 2 December 2018
Line 1:		Line 1:
		+
	==Structure of the tetragonal crystal form of X (ADRP) domain from FCoV==		==Structure of the tetragonal crystal form of X (ADRP) domain from FCoV==
	<StructureSection load='3ew5' size='340' side='right' caption='[[3ew5]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='3ew5' size='340' side='right' caption='[[3ew5]], [[Resolution\|resolution]] 3.10Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1GP:SN-GLYCEROL-1-PHOSPHATE'>1GP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1GP:SN-GLYCEROL-1-PHOSPHATE'>1GP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eti\|3eti]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eti\|3eti]]</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=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [http://pdbe.org/3ew5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ew5 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=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [http://pdbe.org/3ew5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ew5 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3ew5 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/ew/3ew5_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ew/3ew5_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>

OCA at 06:21, 10 February 2016

OCA — Wed, 10 Feb 2016 06:21:16 GMT

←Older revision		Revision as of 06:21, 10 February 2016
Line 2:		Line 2:
	<StructureSection load='3ew5' size='340' side='right' caption='[[3ew5]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='3ew5' size='340' side='right' caption='[[3ew5]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3ew5]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Feline_infectious_peritonitis_virus Feline infectious peritonitis virus~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EW5 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3ew5]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Fcov Fcov]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EW5 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1GP:SN-GLYCEROL-1-PHOSPHATE'>1GP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1GP:SN-GLYCEROL-1-PHOSPHATE'>1GP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eti\|3eti]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eti\|3eti]]</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=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ew5 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=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [http://pdbe.org/3ew5 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ew5 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=3ew5 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 3ew5" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Feline infectious peritonitis virus~~]]	+	[[Category: Fcov]]
	[[Category: Manolaridis, I]]		[[Category: Manolaridis, I]]
	[[Category: Tucker, P A]]		[[Category: Tucker, P A]]

OCA at 12:24, 25 December 2014

OCA — Thu, 25 Dec 2014 12:24:29 GMT

←Older revision		Revision as of 12:24, 25 December 2014
Line 7:		Line 7:
	<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=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ew5 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=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ew5 PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/R1AB_FIPV R1AB_FIPV]] The replicase polyprotein of coronaviruses is a multifunctional protein: it contains the activities necessary for the transcription of negative stranded RNA, leader RNA, subgenomic mRNAs and progeny virion RNA as well as proteinases responsible for the cleavage of the polyprotein into functional products. The papain-like proteinase 1 (PLP1) and papain-like proteinase 2 (PLP2) are responsible for the cleavages located at the N-terminus of the replicase polyprotein. In addition, PLP2 possesses a deubiquitinating/deISGylating activity and processes both 'Lys-48'- and 'Lys-63'-linked polyubiquitin chains from cellular substrates. PLP2 also antagonizes innate immune induction of type I interferon by blocking the nuclear translocation of host IRF-3 (By similarity). 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. Also contains an ADP-ribose-1''-phosphate (ADRP)-binding function (By similarity). The helicase which contains a zinc finger structure displays RNA and DNA duplex-unwinding activities with 5' to 3' polarity. ATPase activity is strongly stimulated by poly(U), poly(dT), poly(C), poly(dA), but not by poly(G) (By similarity). The exoribonuclease acts on both ssRNA and dsRNA in a 3' to 5' direction (By similarity). Nsp7-nsp8 hexadecamer may possibly confer processivity to the polymerase, maybe by binding to dsRNA or by producing primers utilized by the latter (By similarity). Nsp9 is a ssRNA-binding protein (By similarity). NendoU is a Mn(2+)-dependent, uridylate-specific enzyme, which leaves 2'-3'-cyclic phosphates 5' to the cleaved bond (By similarity).
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]

OCA at 08:56, 26 November 2014

OCA — Wed, 26 Nov 2014 08:56:00 GMT

←Older revision		Revision as of 08:56, 26 November 2014
Line 1:		Line 1:
-	[[~~Image:~~3ew5.~~png~~\|~~left~~\|200px]]	+	==Structure of the tetragonal crystal form of X (ADRP) domain from FCoV==
		+	<StructureSection load='3ew5' size='340' side='right' caption='[[3ew5]], [[Resolution\|resolution]] 3.10Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3ew5]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Feline_infectious_peritonitis_virus Feline infectious peritonitis virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EW5 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1GP:SN-GLYCEROL-1-PHOSPHATE'>1GP</scene>, <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3eti\|3eti]]</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=3ew5 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3ew5 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3ew5 RCSB], [http://www.ebi.ac.uk/pdbsum/3ew5 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/ew/3ew5_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 structure of the X (or ADRP) domain of a pathogenic variant of feline coronavirus (FCoV) has been determined in tetragonal and cubic crystal forms to 3.1 and 2.2 A resolution, respectively. In the tetragonal crystal form, glycerol-3-phosphate was observed in the ADP-ribose-binding site. Both crystal forms contained large solvent channels and had a solvent content of higher than 70%. Only very weak binding of this domain to ADP-ribose was detected in vitro. However, the structure with ADP-ribose bound was determined in the cubic crystal form at 3.9 A resolution. The structure of the FCoV X domain had the expected macro-domain fold and is the first structure of this domain from a coronavirus belonging to subgroup 1a.

-	~~{{STRUCTURE_3ew5\| PDB=3ew5 \| SCENE= }}~~	+	Structure of the X (ADRP) domain of nsp3 from feline coronavirus.,Wojdyla JA, Manolaridis I, Snijder EJ, Gorbalenya AE, Coutard B, Piotrowski Y, Hilgenfeld R, Tucker PA Acta Crystallogr D Biol Crystallogr. 2009 Dec;65(Pt 12):1292-300. Epub, 2009 Nov 17. PMID:19966415<ref>PMID:19966415</ref>

-	~~===Structure~~ of the ~~tetragonal crystal form of X (ADRP) domain from FCoV===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_19966415}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[3ew5]] is a 3 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Feline_infectious_peritonitis_virus Feline infectious peritonitis virus]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:019966415<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Feline infectious peritonitis virus]]		[[Category: Feline infectious peritonitis virus]]
-	[[Category: Manolaridis, I.]]	+	[[Category: Manolaridis, I]]
-	[[Category: Tucker, P A.]]	+	[[Category: Tucker, P A]]
-	[[Category: Wojdyla, J A.]]	+	[[Category: Wojdyla, J A]]
	[[Category: Adrp]]		[[Category: Adrp]]
	[[Category: Coronavirus]]		[[Category: Coronavirus]]

OCA: Protected "3ew5" [edit=sysop:move=sysop]

OCA — Wed, 06 Feb 2013 13:44:02 GMT

Protected "3ew5" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:44, 6 February 2013

OCA at 13:43, 6 February 2013

OCA — Wed, 06 Feb 2013 13:43:59 GMT

←Older revision		Revision as of 13:43, 6 February 2013
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-	{{Seed}}
	[[Image:3ew5.png\|left\|200px]]		[[Image:3ew5.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3ew5", 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),
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	{{STRUCTURE_3ew5\| PDB=3ew5 \| SCENE= }}		{{STRUCTURE_3ew5\| PDB=3ew5 \| SCENE= }}

	===Structure of the tetragonal crystal form of X (ADRP) domain from FCoV===		===Structure of the tetragonal crystal form of X (ADRP) domain from FCoV===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_19966415}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 19966415 is the PubMed ID number.
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	{{ABSTRACT_PUBMED_19966415}}		{{ABSTRACT_PUBMED_19966415}}

	==About this Structure==		==About this Structure==
-	~~3EW5~~ is a 3 ~~chains~~ structure with ~~sequences~~ from [http://en.wikipedia.org/wiki/Feline_infectious_peritonitis_virus Feline infectious peritonitis virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA].	+	[[3ew5]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Feline_infectious_peritonitis_virus Feline infectious peritonitis virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~19966415~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:019966415</ref><references group="xtra"/>
	[[Category: Feline infectious peritonitis virus]]		[[Category: Feline infectious peritonitis virus]]
	[[Category: Manolaridis, I.]]		[[Category: Manolaridis, I.]]
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	[[Category: Rna binding protein]]		[[Category: Rna binding protein]]
	[[Category: X domain]]		[[Category: X domain]]
-
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OCA at 13:07, 28 January 2010

OCA — Thu, 28 Jan 2010 13:07:44 GMT

←Older revision		Revision as of 13:07, 28 January 2010
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	3EW5 is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Feline_infectious_peritonitis_virus Feline infectious peritonitis virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA].	+	3EW5 is a 3 chains structure with sequences from [http://en.wikipedia.org/wiki/Feline_infectious_peritonitis_virus Feline infectious peritonitis virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA].

	==Reference==		==Reference==
Line 34:		Line 34:
	[[Category: X domain]]		[[Category: X domain]]

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OCA at 11:09, 13 January 2010

OCA — Wed, 13 Jan 2010 11:09:01 GMT

←Older revision		Revision as of 11:09, 13 January 2010
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	{{Seed}}		{{Seed}}
-	[[Image:3ew5.~~jpg~~\|left\|200px]]	+	[[Image:3ew5.png\|left\|200px]]

	<!--		<!--
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	===Structure of the tetragonal crystal form of X (ADRP) domain from FCoV===		===Structure of the tetragonal crystal form of X (ADRP) domain from FCoV===

		+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_19966415}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 19966415 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_19966415}}

	==About this Structure==		==About this Structure==
	3EW5 is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Feline_infectious_peritonitis_virus Feline infectious peritonitis virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA].		3EW5 is a 3 chains structure of sequences from [http://en.wikipedia.org/wiki/Feline_infectious_peritonitis_virus Feline infectious peritonitis virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EW5 OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:19966415</ref><references group="xtra"/>
	[[Category: Feline infectious peritonitis virus]]		[[Category: Feline infectious peritonitis virus]]
	[[Category: Manolaridis, I.]]		[[Category: Manolaridis, I.]]
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	[[Category: X domain]]		[[Category: X domain]]

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