4imq - Revision history

OCA at 15:25, 20 September 2023

2023-09-20T15:25:59Z

←Older revision		Revision as of 15:25, 20 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4imq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Norovirus_Hu/1968/US Norovirus Hu/1968/US] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4IMQ FirstGlance]. <br>		<table><tr><td colspan='2'>[[4imq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Norovirus_Hu/1968/US Norovirus Hu/1968/US] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4IMQ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1HD:N-[(2S)-2-AMINO-3-HYDROXYPROPYL]ACETAMIDE'>1HD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PHQ:BENZYL+CHLOROCARBONATE'>PHQ</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 1.5Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1HD:N-[(2S)-2-AMINO-3-HYDROXYPROPYL]ACETAMIDE'>1HD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PHQ:BENZYL+CHLOROCARBONATE'>PHQ</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</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=4imq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4imq OCA], [https://pdbe.org/4imq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4imq RCSB], [https://www.ebi.ac.uk/pdbsum/4imq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4imq 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=4imq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4imq OCA], [https://pdbe.org/4imq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4imq RCSB], [https://www.ebi.ac.uk/pdbsum/4imq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4imq ProSAT]</span></td></tr>
	</table>		</table>

OCA at 20:56, 16 November 2022

2022-11-16T20:56:28Z

←Older revision		Revision as of 20:56, 16 November 2022
Line 1:		Line 1:

	==Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus==		==Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus==
-	<StructureSection load='4imq' size='340' side='right' caption='[[4imq]], [[Resolution\|resolution]] 1.50Å' scene=''>	+	<StructureSection load='4imq' size='340' side='right'caption='[[4imq]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4imq]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Hu/nv/nv/1968/~~us Hu~~/nv/nv/~~1968~~/us]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4IMQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4imq]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Norovirus_Hu/1968/US Norovirus Hu/1968/US] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4IMQ FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"~~><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1HD:N-[(2S)-2-AMINO-3-HYDROXYPROPYL]ACETAMIDE'>1HD</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=PHQ:BENZYL+CHLOROCARBONATE'>PHQ</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>
-	~~<tr~~ id~~='NonStdRes'><td class~~="~~sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat~~"><scene name='pdbligand=1HD:N-[(2S)-2-AMINO-3-HYDROXYPROPYL]ACETAMIDE'>1HD</scene>, <scene name='pdbligand=~~PHQ~~:~~BENZYL~~+~~CHLOROCARBONATE~~'>~~PHQ~~</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=4imq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4imq OCA], [https://pdbe.org/4imq PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4imq RCSB], [https://www.ebi.ac.uk/pdbsum/4imq PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4imq ProSAT]</span></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td>~~<td class="sblockDat">[[4in1\|4in1]]~~, ~~[[4imz\|4imz]], [[4in2\|4in2]]~~<~~/td></tr>~~	+
-	~~<tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b></td><td class="sblockDat">ORF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=524364 Hu/NV/NV/1968/US])</td></tr>~~	+
-	~~<tr id='activity~~'>~~<td class="sblockLbl"><b>Activity:~~</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Calicivirin Calicivirin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.66 3.4.22.66] </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=4imq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4imq OCA], [~~http~~://pdbe.org/4imq PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4imq RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4imq PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4imq ProSAT]</span></td></tr>	+
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/POLG_NVN68 POLG_NVN68]] Protein p48 may play a role in viral replication by interacting with host VAPA, a vesicle-associated membrane protein that plays a role in SNARE-mediated vesicle fusion. This interaction may target replication complex to intracellular membranes.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> Protein P22 may play a role in targeting replication complex to intracellular membranes.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> Viral genome-linked protein is covalently linked to the 5'-end of the positive-strand, negative-strand genomic RNAs and subgenomic RNA. Acts as a genome-linked replication primer. May recruit ribosome to viral RNA thereby promoting viral proteins translation.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> 3C-like protease processes the polyprotein: 3CLpro-RdRp is first released by autocleavage, then all other proteins are cleaved. May cleave host polyadenylate-binding protein thereby inhibiting cellular translation (By similarity).<ref>PMID:569187</ref> <ref>PMID:11160659</ref> RNA-directed RNA polymerase replicates genomic and antigenomic RNA by recognizing replications specific signals. Transcribes also a subgenomic mRNA by initiating RNA synthesis internally on antigenomic RNA. This sgRNA encodes for structural proteins. Catalyzes the covalent attachment VPg with viral RNAs (By similarity).<ref>PMID:569187</ref> <ref>PMID:11160659</ref>	+	[https://www.uniprot.org/uniprot/POLG_NVN68 POLG_NVN68] Protein p48 may play a role in viral replication by interacting with host VAPA, a vesicle-associated membrane protein that plays a role in SNARE-mediated vesicle fusion. This interaction may target replication complex to intracellular membranes.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> Protein P22 may play a role in targeting replication complex to intracellular membranes.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> Viral genome-linked protein is covalently linked to the 5'-end of the positive-strand, negative-strand genomic RNAs and subgenomic RNA. Acts as a genome-linked replication primer. May recruit ribosome to viral RNA thereby promoting viral proteins translation.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> 3C-like protease processes the polyprotein: 3CLpro-RdRp is first released by autocleavage, then all other proteins are cleaved. May cleave host polyadenylate-binding protein thereby inhibiting cellular translation (By similarity).<ref>PMID:569187</ref> <ref>PMID:11160659</ref> RNA-directed RNA polymerase replicates genomic and antigenomic RNA by recognizing replications specific signals. Transcribes also a subgenomic mRNA by initiating RNA synthesis internally on antigenomic RNA. This sgRNA encodes for structural proteins. Catalyzes the covalent attachment VPg with viral RNAs (By similarity).<ref>PMID:569187</ref> <ref>PMID:11160659</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 4imq" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 4imq" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Virus protease 3D structures\|Virus protease 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Calicivirin~~]]	+	[[Category: Large Structures]]
-	[[Category: Hu~~/nv/nv~~/1968/us]]	+	[[Category: Norovirus Hu/1968/US]]
-	[[Category: Deng, L]]	+	[[Category: Synthetic construct]]
-	[[Category: Estes~~, M K~~]]	+	[[Category: Deng L]]
-	[[Category: Muhaxhiri, Z]]	+	[[Category: Estes MK]]
-	[[Category: Palzkill, T]]	+	[[Category: Muhaxhiri Z]]
-	[[Category: Prasad~~, B V.V~~]]	+	[[Category: Palzkill T]]
-	[[Category: Sankaran, B]]	+	[[Category: Prasad BVV]]
-	[[Category: Shanker, S]]	+	[[Category: Sankaran B]]
-	[[Category: Song, Y]]	+	[[Category: Shanker S]]
-	~~[[Category: Hydrolase-hydrolase inhibitor complex]]~~	+	[[Category: Song Y]]
-	~~[[Category: Protease~~]]	+

OCA at 09:32, 4 August 2016

2016-08-04T09:32:39Z

←Older revision		Revision as of 09:32, 4 August 2016
Line 1:		Line 1:
		+
	==Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus==		==Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus==
	<StructureSection load='4imq' size='340' side='right' caption='[[4imq]], [[Resolution\|resolution]] 1.50Å' scene=''>		<StructureSection load='4imq' size='340' side='right' caption='[[4imq]], [[Resolution\|resolution]] 1.50Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4imq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Norovirus_hu~~/1968/us ~~Norovirus hu~~/1968/us]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IMQ FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4imq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Hu/nv/nv/1968/us Hu/nv/nv/1968/us]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IMQ FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=1HD:N-[(2S)-2-AMINO-3-HYDROXYPROPYL]ACETAMIDE'>1HD</scene>, <scene name='pdbligand=PHQ:BENZYL+CHLOROCARBONATE'>PHQ</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=1HD:N-[(2S)-2-AMINO-3-HYDROXYPROPYL]ACETAMIDE'>1HD</scene>, <scene name='pdbligand=PHQ:BENZYL+CHLOROCARBONATE'>PHQ</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4in1\|4in1]], [[4imz\|4imz]], [[4in2\|4in2]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4in1\|4in1]], [[4imz\|4imz]], [[4in2\|4in2]]</td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ORF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=524364 ~~Norovirus~~ Hu/1968/US])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ORF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=524364 Hu/NV/NV/1968/US])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Calicivirin Calicivirin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.66 3.4.22.66] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Calicivirin Calicivirin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.66 3.4.22.66] </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=4imq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4imq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4imq RCSB], [http://www.ebi.ac.uk/pdbsum/4imq 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=4imq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4imq OCA], [http://pdbe.org/4imq PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4imq RCSB], [http://www.ebi.ac.uk/pdbsum/4imq PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4imq ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 20:		Line 21:
	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 4imq" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
Line 25:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Calicivirin]]		[[Category: Calicivirin]]
-	[[Category: ~~Norovirus hu~~/1968/us]]	+	[[Category: Hu/nv/nv/1968/us]]
	[[Category: Deng, L]]		[[Category: Deng, L]]
	[[Category: Estes, M K]]		[[Category: Estes, M K]]

OCA at 08:18, 24 December 2014

2014-12-24T08:18:34Z

←Older revision		Revision as of 08:18, 24 December 2014
Line 1:		Line 1:
-	~~{{STRUCTURE_4imq\| PDB=4imq \| SCENE= }}~~	+	==Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus==
-	===Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus===	+	<StructureSection load='4imq' size='340' side='right' caption='[[4imq]], [[Resolution\|resolution]] 1.50Å' scene=''>
-	~~{{ABSTRACT_PUBMED_23365454}}~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4imq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Norovirus_hu/1968/us Norovirus hu/1968/us]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4IMQ FirstGlance]. <br>
-	==Function==	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NA:SODIUM+ION'>NA</scene>, <scene name='pdbligand=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=1HD:N-[(2S)-2-AMINO-3-HYDROXYPROPYL]ACETAMIDE'>1HD</scene>, <scene name='pdbligand=PHQ:BENZYL+CHLOROCARBONATE'>PHQ</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4in1\|4in1]], [[4imz\|4imz]], [[4in2\|4in2]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">ORF1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=524364 Norovirus Hu/1968/US])</td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/Calicivirin Calicivirin], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.4.22.66 3.4.22.66] </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=4imq FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4imq OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4imq RCSB], [http://www.ebi.ac.uk/pdbsum/4imq PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
	[[http://www.uniprot.org/uniprot/POLG_NVN68 POLG_NVN68]] Protein p48 may play a role in viral replication by interacting with host VAPA, a vesicle-associated membrane protein that plays a role in SNARE-mediated vesicle fusion. This interaction may target replication complex to intracellular membranes.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> Protein P22 may play a role in targeting replication complex to intracellular membranes.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> Viral genome-linked protein is covalently linked to the 5'-end of the positive-strand, negative-strand genomic RNAs and subgenomic RNA. Acts as a genome-linked replication primer. May recruit ribosome to viral RNA thereby promoting viral proteins translation.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> 3C-like protease processes the polyprotein: 3CLpro-RdRp is first released by autocleavage, then all other proteins are cleaved. May cleave host polyadenylate-binding protein thereby inhibiting cellular translation (By similarity).<ref>PMID:569187</ref> <ref>PMID:11160659</ref> RNA-directed RNA polymerase replicates genomic and antigenomic RNA by recognizing replications specific signals. Transcribes also a subgenomic mRNA by initiating RNA synthesis internally on antigenomic RNA. This sgRNA encodes for structural proteins. Catalyzes the covalent attachment VPg with viral RNAs (By similarity).<ref>PMID:569187</ref> <ref>PMID:11160659</ref>		[[http://www.uniprot.org/uniprot/POLG_NVN68 POLG_NVN68]] Protein p48 may play a role in viral replication by interacting with host VAPA, a vesicle-associated membrane protein that plays a role in SNARE-mediated vesicle fusion. This interaction may target replication complex to intracellular membranes.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> Protein P22 may play a role in targeting replication complex to intracellular membranes.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> Viral genome-linked protein is covalently linked to the 5'-end of the positive-strand, negative-strand genomic RNAs and subgenomic RNA. Acts as a genome-linked replication primer. May recruit ribosome to viral RNA thereby promoting viral proteins translation.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> 3C-like protease processes the polyprotein: 3CLpro-RdRp is first released by autocleavage, then all other proteins are cleaved. May cleave host polyadenylate-binding protein thereby inhibiting cellular translation (By similarity).<ref>PMID:569187</ref> <ref>PMID:11160659</ref> RNA-directed RNA polymerase replicates genomic and antigenomic RNA by recognizing replications specific signals. Transcribes also a subgenomic mRNA by initiating RNA synthesis internally on antigenomic RNA. This sgRNA encodes for structural proteins. Catalyzes the covalent attachment VPg with viral RNAs (By similarity).<ref>PMID:569187</ref> <ref>PMID:11160659</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Norwalk virus (NV), the prototype human calicivirus, is the leading cause of non-bacterial acute gastroenteritis. The NV protease cleaves the polyprotein, encoded by the open reading frame 1 of the viral genome, at five non-homologous sites to release six nonstructural proteins that are essential for viral replication. The structural details of how NV protease recognizes multiple substrates are unclear. In our X-ray structure of an NV protease construct, we observed that the C-terminal tail, representing a native substrate P5-P1, is inserted into the active site cleft of the neighboring protease molecule providing atomic details of how NV protease recognizes a substrate. The crystallographic structure of NV protease with the C-terminal tail redesigned to mimic P4-P1 of another substrate site provided further structural details of how the active site accommodates sequence variations in the substrates. Based on these structural analyses, substrate-based aldehyde inhibitors were synthesized and screened for their inhibition potency. Crystallographic structures of the protease in complex with each of the three most potent inhibitors were determined. These structures showed concerted conformational changes in the S4-S2 pockets of the protease to accommodate variations in the P4-P2 residues of the substrate/inhibitor, which could be a mechanism for how the NV protease recognizes multiple sites in the polyprotein with differential affinities during virus replication. These structures further indicate that the mechanism of inhibition by these inhibitors involves covalent bond formation with the side-chain of the conserved cysteine in the active site by nucleophilic addition, and such substrate-based aldehydes could be effective protease inhibitors.

-	~~==About this Structure==~~	+	Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus.,Muhaxhiri Z, Deng L, Shanker S, Sankaran B, Estes MK, Palzkill T, Song Y, Prasad BV J Virol. 2013 Jan 30. PMID:23365454<ref>PMID:23365454</ref>
-	~~[[4imq]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Norovirus_hu/1968/us Norovirus hu/1968/us]~~. ~~Full crystallographic information is available from [http~~:/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA].~~	+

-	==~~Reference~~==	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	<references ~~group="xtra"~~/><~~references~~/>	+	</div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Calicivirin]]		[[Category: Calicivirin]]
	[[Category: Norovirus hu/1968/us]]		[[Category: Norovirus hu/1968/us]]
-	[[Category: Deng, L.]]	+	[[Category: Deng, L]]
-	[[Category: Estes, M K.]]	+	[[Category: Estes, M K]]
-	[[Category: Muhaxhiri, Z.]]	+	[[Category: Muhaxhiri, Z]]
-	[[Category: Palzkill, T.]]	+	[[Category: Palzkill, T]]
-	[[Category: Prasad, B V.V.]]	+	[[Category: Prasad, B V.V]]
-	[[Category: Sankaran, B.]]	+	[[Category: Sankaran, B]]
-	[[Category: Shanker, S.]]	+	[[Category: Shanker, S]]
-	[[Category: Song, Y.]]	+	[[Category: Song, Y]]
	[[Category: Hydrolase-hydrolase inhibitor complex]]		[[Category: Hydrolase-hydrolase inhibitor complex]]
	[[Category: Protease]]		[[Category: Protease]]

OCA at 21:49, 10 April 2013

2013-04-10T21:49:27Z

←Older revision		Revision as of 21:49, 10 April 2013
Line 1:		Line 1:
-	[[Image:4imq.jpg\|left\|200px]]
-
	{{STRUCTURE_4imq\| PDB=4imq \| SCENE= }}		{{STRUCTURE_4imq\| PDB=4imq \| SCENE= }}
-
	===Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus===		===Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus===
-
	{{ABSTRACT_PUBMED_23365454}}		{{ABSTRACT_PUBMED_23365454}}
		+
		+	==Function==
		+	[[http://www.uniprot.org/uniprot/POLG_NVN68 POLG_NVN68]] Protein p48 may play a role in viral replication by interacting with host VAPA, a vesicle-associated membrane protein that plays a role in SNARE-mediated vesicle fusion. This interaction may target replication complex to intracellular membranes.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> NTPase presumably plays a role in replication. Despite having similarities with helicases, does not seem to display any helicase activity.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> Protein P22 may play a role in targeting replication complex to intracellular membranes.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> Viral genome-linked protein is covalently linked to the 5'-end of the positive-strand, negative-strand genomic RNAs and subgenomic RNA. Acts as a genome-linked replication primer. May recruit ribosome to viral RNA thereby promoting viral proteins translation.<ref>PMID:569187</ref> <ref>PMID:11160659</ref> 3C-like protease processes the polyprotein: 3CLpro-RdRp is first released by autocleavage, then all other proteins are cleaved. May cleave host polyadenylate-binding protein thereby inhibiting cellular translation (By similarity).<ref>PMID:569187</ref> <ref>PMID:11160659</ref> RNA-directed RNA polymerase replicates genomic and antigenomic RNA by recognizing replications specific signals. Transcribes also a subgenomic mRNA by initiating RNA synthesis internally on antigenomic RNA. This sgRNA encodes for structural proteins. Catalyzes the covalent attachment VPg with viral RNAs (By similarity).<ref>PMID:569187</ref> <ref>PMID:11160659</ref>

	==About this Structure==		==About this Structure==
	[[4imq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Norovirus_hu/1968/us Norovirus hu/1968/us]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA].		[[4imq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Norovirus_hu/1968/us Norovirus hu/1968/us]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA].
		+
		+	==Reference==
		+	<references group="xtra"/><references/>
	[[Category: Calicivirin]]		[[Category: Calicivirin]]
	[[Category: Norovirus hu/1968/us]]		[[Category: Norovirus hu/1968/us]]

OCA at 13:51, 20 February 2013

2013-02-20T13:51:02Z

←Older revision		Revision as of 13:51, 20 February 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4imq.jpg\|left\|200px]]

-	~~The entry~~ 4imq ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_4imq\| PDB=4imq \| SCENE= }}

-	~~Authors: Prasad, B.V.V., Muhaxhiri, Z., Deng, L., Shanker, S., Sankaran, B., Estes, M.K., Palzkill, T., Song, Y.~~	+	===Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus===

-	~~Description~~: ~~Structural Basis of Substrate Specificity and~~ Protease ~~Inhibition in Norwalk Virus~~	+	{{ABSTRACT_PUBMED_23365454}}
		+
		+	==About this Structure==
		+	[[4imq]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Norovirus_hu/1968/us Norovirus hu/1968/us]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4IMQ OCA].
		+	[[Category: Calicivirin]]
		+	[[Category: Norovirus hu/1968/us]]
		+	[[Category: Deng, L.]]
		+	[[Category: Estes, M K.]]
		+	[[Category: Muhaxhiri, Z.]]
		+	[[Category: Palzkill, T.]]
		+	[[Category: Prasad, B V.V.]]
		+	[[Category: Sankaran, B.]]
		+	[[Category: Shanker, S.]]
		+	[[Category: Song, Y.]]
		+	[[Category: Hydrolase-hydrolase inhibitor complex]]
		+	[[Category: Protease]]

OCA at 10:05, 13 February 2013

2013-02-13T10:05:07Z

←Older revision		Revision as of 10:05, 13 February 2013
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4imq is ON HOLD	+	The entry 4imq is ON HOLD until Paper Publication

	Authors: Prasad, B.V.V., Muhaxhiri, Z., Deng, L., Shanker, S., Sankaran, B., Estes, M.K., Palzkill, T., Song, Y.		Authors: Prasad, B.V.V., Muhaxhiri, Z., Deng, L., Shanker, S., Sankaran, B., Estes, M.K., Palzkill, T., Song, Y.

	Description: Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus		Description: Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus

OCA at 12:02, 30 January 2013

2013-01-30T12:02:13Z

←Older revision		Revision as of 12:02, 30 January 2013
Line 3:		Line 3:
	The entry 4imq is ON HOLD		The entry 4imq is ON HOLD

-	Authors: Prasad, B.V.V, Muhaxhiri, Z, Deng, L, Shanker, S, Sankaran, B, Estes, M.K, Palzkill, T, Song, Y	+	Authors: Prasad, B.V.V., Muhaxhiri, Z., Deng, L., Shanker, S., Sankaran, B., Estes, M.K., Palzkill, T., Song, Y.

	Description: Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus		Description: Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus

OCA at 08:26, 16 January 2013

2013-01-16T08:26:09Z

←Older revision		Revision as of 08:26, 16 January 2013
Line 3:		Line 3:
	The entry 4imq is ON HOLD		The entry 4imq is ON HOLD

-	Authors: Prasad, B.V.V, Muhaxhiri, Z , Deng, L, Shanker, S, Sankaran, B, Estes, M.K, Palzkill, T, Song, Y	+	Authors: Prasad, B.V.V, Muhaxhiri, Z, Deng, L, Shanker, S, Sankaran, B, Estes, M.K, Palzkill, T, Song, Y

	Description: Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus		Description: Structural Basis of Substrate Specificity and Protease Inhibition in Norwalk Virus

OCA: Protected "4imq" [edit=sysop:move=sysop]

2013-01-09T07:53:09Z

Protected "4imq" [edit=sysop:move=sysop]

←Older revision

Revision as of 07:53, 9 January 2013