2p41 - Revision history

OCA at 10:53, 30 August 2023

OCA — Wed, 30 Aug 2023 10:53:58 GMT

←Older revision		Revision as of 10:53, 30 August 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2p41]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P41 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2p41]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P41 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=G1G:7-METHYL-GUANOSINE-5-TRIPHOSPHATE-5-(2-O-METHYL)-GUANOSINE'>G1G</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</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]] 1.801Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1l9k\|1l9k]], [[2p1d\|2p1d]], [[2p3l\|2p3l]], [[2p3o\|2p3o]], [[2p3q\|2p3q]], [[2p40\|2p40]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=G1G:7-METHYL-GUANOSINE-5-TRIPHOSPHATE-5-(2-O-METHYL)-GUANOSINE'>G1G</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NSP5 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11060 Dengue virus 2])</td></tr>	+
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [https://pdbe.org/2p41 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [https://www.ebi.ac.uk/pdbsum/2p41 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p41 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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [https://pdbe.org/2p41 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [https://www.ebi.ac.uk/pdbsum/2p41 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p41 ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q9WLZ5_9FLAV Q9WLZ5_9FLAV] Component of the viral RNA replication complex that functions in virion assembly and antagonizes the host immune response.[ARBA:ARBA00024317] Functions as a signal peptide for NS4B and is required for the interferon antagonism activity of the latter.[ARBA:ARBA00003504] Serine protease subunit NS2B: Required cofactor for the serine protease function of NS3.[PROSITE-ProRule:PRU00859]
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 35:		Line 35:
	[[Category: Dengue virus 2]]		[[Category: Dengue virus 2]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	~~[[Category: RNA-directed RNA polymerase]]~~	+	[[Category: Egloff MP]]
-	[[Category: Egloff~~, M P]]~~	+
-	~~[[Category: Structural genomic]]~~	+
-	~~[[Category: Dengue virus methyltransferase]]~~	+
-	~~[[Category: Msgp]]~~	+
-	~~[[Category: Transferase]]~~	+
-	~~[[Category: Viral enzymes involved in replication]]~~	+
-	~~[[Category: Viral protein]]~~	+
-	~~[[Category: Vizier~~]]	+

OCA at 15:15, 17 June 2021

OCA — Thu, 17 Jun 2021 15:15:39 GMT

←Older revision		Revision as of 15:15, 17 June 2021
Line 1:		Line 1:

	==Crystal Structure of Dengue Methyltransferase in Complex with 7MeGpppG2'OMe and S-Adenosyl-L-homocysteine==		==Crystal Structure of Dengue Methyltransferase in Complex with 7MeGpppG2'OMe and S-Adenosyl-L-homocysteine==
-	<StructureSection load='2p41' size='340' side='right' caption='[[2p41]], [[Resolution\|resolution]] 1.80Å' scene=''>	+	<StructureSection load='2p41' size='340' side='right'caption='[[2p41]], [[Resolution\|resolution]] 1.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2p41]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2P41 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2p41]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2P41 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=G1G:7-METHYL-GUANOSINE-5-TRIPHOSPHATE-5-(2-O-METHYL)-GUANOSINE'>G1G</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</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=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=G1G:7-METHYL-GUANOSINE-5-TRIPHOSPHATE-5-(2-O-METHYL)-GUANOSINE'>G1G</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</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">[[1l9k\|1l9k]], [[2p1d\|2p1d]], [[2p3l\|2p3l]], [[2p3o\|2p3o]], [[2p3q\|2p3q]], [[2p40\|2p40]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[1l9k\|1l9k]], [[2p1d\|2p1d]], [[2p3l\|2p3l]], [[2p3o\|2p3o]], [[2p3q\|2p3q]], [[2p40\|2p40]]</div></td></tr>
-	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NSP5 ([~~http~~://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11060 Dengue virus 2])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NSP5 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11060 Dengue virus 2])</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [~~http~~://pdbe.org/2p41 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2p41 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2p41 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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [https://pdbe.org/2p41 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [https://www.ebi.ac.uk/pdbsum/2p41 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2p41 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 34:		Line 34:
	</StructureSection>		</StructureSection>
	[[Category: Dengue virus 2]]		[[Category: Dengue virus 2]]
		+	[[Category: Large Structures]]
	[[Category: RNA-directed RNA polymerase]]		[[Category: RNA-directed RNA polymerase]]
	[[Category: Egloff, M P]]		[[Category: Egloff, M P]]

OCA at 07:17, 22 August 2018

OCA — Wed, 22 Aug 2018 07:17:32 GMT

←Older revision		Revision as of 07:17, 22 August 2018
Line 1:		Line 1:
		+
	==Crystal Structure of Dengue Methyltransferase in Complex with 7MeGpppG2'OMe and S-Adenosyl-L-homocysteine==		==Crystal Structure of Dengue Methyltransferase in Complex with 7MeGpppG2'OMe and S-Adenosyl-L-homocysteine==
	<StructureSection load='2p41' size='340' side='right' caption='[[2p41]], [[Resolution\|resolution]] 1.80Å' scene=''>		<StructureSection load='2p41' size='340' side='right' caption='[[2p41]], [[Resolution\|resolution]] 1.80Å' scene=''>
Line 7:		Line 8:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NSP5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11060 Dengue virus 2])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NSP5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11060 Dengue virus 2])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [http://pdbe.org/2p41 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [http://www.ebi.ac.uk/pdbsum/2p41 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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [http://pdbe.org/2p41 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [http://www.ebi.ac.uk/pdbsum/2p41 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2p41 ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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/p4/2p41_consurf.spt"</scriptWhenChecked>	+	<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/p4/2p41_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 06:41, 10 February 2016

OCA — Wed, 10 Feb 2016 06:41:29 GMT

←Older revision		Revision as of 06:41, 10 February 2016
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=2p41 ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 06:21, 11 September 2015

OCA — Fri, 11 Sep 2015 06:21:57 GMT

←Older revision		Revision as of 06:21, 11 September 2015
Line 7:		Line 7:
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NSP5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11060 Dengue virus 2])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NSP5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11060 Dengue virus 2])</td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [http://www.ebi.ac.uk/pdbsum/2p41 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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [http://pdbe.org/2p41 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [http://www.ebi.ac.uk/pdbsum/2p41 PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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 2p41" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>

OCA at 16:54, 19 January 2015

OCA — Mon, 19 Jan 2015 16:54:52 GMT

←Older revision		Revision as of 16:54, 19 January 2015
Line 3:		Line 3:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[2p41]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P41 FirstGlance]. <br>		<table><tr><td colspan='2'>[[2p41]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P41 FirstGlance]. <br>
-	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=G1G:7-METHYL-GUANOSINE-5-TRIPHOSPHATE-5-(2-O-METHYL)-GUANOSINE'>G1G</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=G1G:7-METHYL-GUANOSINE-5-TRIPHOSPHATE-5-(2-O-METHYL)-GUANOSINE'>G1G</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
-	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1l9k\|1l9k]], [[2p1d\|2p1d]], [[2p3l\|2p3l]], [[2p3o\|2p3o]], [[2p3q\|2p3q]], [[2p40\|2p40]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1l9k\|1l9k]], [[2p1d\|2p1d]], [[2p3l\|2p3l]], [[2p3o\|2p3o]], [[2p3q\|2p3q]], [[2p40\|2p40]]</td></tr>
-	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NSP5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11060 Dengue virus 2])</td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NSP5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11060 Dengue virus 2])</td></tr>
-	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </span></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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [http://www.ebi.ac.uk/pdbsum/2p41 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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [http://www.ebi.ac.uk/pdbsum/2p41 PDBsum]</span></td></tr>
-	<table>	+	</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
Line 33:		Line 33:
	[[Category: Dengue virus 2]]		[[Category: Dengue virus 2]]
	[[Category: RNA-directed RNA polymerase]]		[[Category: RNA-directed RNA polymerase]]
-	[[Category: Egloff, M P.]]	+	[[Category: Egloff, M P]]
-	[[Category: ~~MSGP, Marseilles~~ Structural ~~Genomics Program.@.AFMB.~~]]	+	[[Category: Structural genomic]]
	[[Category: Dengue virus methyltransferase]]		[[Category: Dengue virus methyltransferase]]
-	[[Category: Marseilles structural genomics program @ afmb]]
	[[Category: Msgp]]		[[Category: Msgp]]
-	[[Category: Structural genomic]]
	[[Category: Transferase]]		[[Category: Transferase]]
	[[Category: Viral enzymes involved in replication]]		[[Category: Viral enzymes involved in replication]]
	[[Category: Viral protein]]		[[Category: Viral protein]]
	[[Category: Vizier]]		[[Category: Vizier]]

OCA at 19:32, 30 September 2014

OCA — Tue, 30 Sep 2014 19:32:03 GMT

←Older revision		Revision as of 19:32, 30 September 2014
Line 1:		Line 1:
-	[[~~Image:~~2p41.~~png~~\|~~left~~\|200px]]	+	==Crystal Structure of Dengue Methyltransferase in Complex with 7MeGpppG2'OMe and S-Adenosyl-L-homocysteine==
		+	<StructureSection load='2p41' size='340' side='right' caption='[[2p41]], [[Resolution\|resolution]] 1.80Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2p41]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2P41 FirstGlance]. <br>
		+	</td></tr><tr><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CIT:CITRIC+ACID'>CIT</scene>, <scene name='pdbligand=G1G:7-METHYL-GUANOSINE-5-TRIPHOSPHATE-5-(2-O-METHYL)-GUANOSINE'>G1G</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene><br>
		+	<tr><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[1l9k\|1l9k]], [[2p1d\|2p1d]], [[2p3l\|2p3l]], [[2p3o\|2p3o]], [[2p3q\|2p3q]], [[2p40\|2p40]]</td></tr>
		+	<tr><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">NSP5 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11060 Dengue virus 2])</td></tr>
		+	<tr><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA-directed_RNA_polymerase RNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.48 2.7.7.48] </span></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=2p41 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2p41 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2p41 RCSB], [http://www.ebi.ac.uk/pdbsum/2p41 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/p4/2p41_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 N-terminal 33 kDa domain of non-structural protein 5 (NS5) of dengue virus (DV), named NS5MTase(DV), is involved in two of four steps required for the formation of the viral mRNA cap (7Me)GpppA(2'OMe), the guanine-N7 and the adenosine-2'O methylation. Its S-adenosyl-l-methionine (AdoMet) dependent 2'O-methyltransferase (MTase) activity has been shown on capped (7Me+/-)GpppAC(n) RNAs. Here we report structural and binding studies using cap analogues and capped RNAs. We have solved five crystal structures at 1.8 A to 2.8 A resolution of NS5MTase(DV) in complex with cap analogues and the co-product of methylation S-adenosyl-l-homocysteine (AdoHcy). The cap analogues can adopt several conformations. The guanosine moiety of all cap analogues occupies a GTP-binding site identified earlier, indicating that GTP and cap share the same binding site. Accordingly, we show that binding of (7Me)GpppAC(4) and (7Me)GpppAC(5) RNAs is inhibited in the presence of GTP, (7Me)GTP and (7Me)GpppA but not by ATP. This particular position of the cap is in accordance with the 2'O-methylation step. A model was generated of a ternary 2'O-methylation complex of NS5MTase(DV), (7Me)GpppA and AdoMet. RNA-binding increased when (7Me+/-)GpppAGC(n-1) starting with the consensus sequence GpppAG, was used instead of (7Me+/-)GpppAC(n). In the NS5MTase(DV)-GpppA complex the cap analogue adopts a folded, stacked conformation uniquely possible when adenine is the first transcribed nucleotide at the 5' end of nascent RNA, as it is the case in all flaviviruses. This conformation cannot be a functional intermediate of methylation, since both the guanine-N7 and adenosine-2'O positions are too far away from AdoMet. We hypothesize that this conformation mimics the reaction product of a yet-to-be-demonstrated guanylyltransferase activity. A putative Flavivirus RNA capping pathway is proposed combining the different steps where the NS5MTase domain is involved.

-	~~{{STRUCTURE_2p41\| PDB=2p41 \| SCENE= }}~~	+	Structural and functional analysis of methylation and 5'-RNA sequence requirements of short capped RNAs by the methyltransferase domain of dengue virus NS5.,Egloff MP, Decroly E, Malet H, Selisko B, Benarroch D, Ferron F, Canard B J Mol Biol. 2007 Sep 21;372(3):723-36. Epub 2007 Jul 12. PMID:17686489<ref>PMID:17686489</ref>

-	~~===Crystal Structure~~ of ~~Dengue Methyltransferase in Complex with 7MeGpppG2'OMe and~~ S~~-Adenosyl-L-homocysteine===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_17686489}}~~	+	== References ==
-		+	<references/>
-	~~==About this Structure==~~	+	__TOC__
-	~~[[2p41]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA].~~	+	</StructureSection>
-		+
-	==~~Reference~~==	+
-	<~~ref group="xtra">PMID:017686489<~~/~~ref~~><~~references group="xtra"~~/>	+
	[[Category: Dengue virus 2]]		[[Category: Dengue virus 2]]
	[[Category: RNA-directed RNA polymerase]]		[[Category: RNA-directed RNA polymerase]]

OCA: Protected "2p41" [edit=sysop:move=sysop]

OCA — Mon, 07 Jan 2013 11:53:45 GMT

Protected "2p41" [edit=sysop:move=sysop]

←Older revision

Revision as of 11:53, 7 January 2013

OCA at 11:53, 7 January 2013

OCA — Mon, 07 Jan 2013 11:53:43 GMT

←Older revision		Revision as of 11:53, 7 January 2013
Line 1:		Line 1:
-	{{Seed}}
	[[Image:2p41.png\|left\|200px]]		[[Image:2p41.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2p41", 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_2p41\| PDB=2p41 \| SCENE= }}		{{STRUCTURE_2p41\| PDB=2p41 \| SCENE= }}

	===Crystal Structure of Dengue Methyltransferase in Complex with 7MeGpppG2'OMe and S-Adenosyl-L-homocysteine===		===Crystal Structure of Dengue Methyltransferase in Complex with 7MeGpppG2'OMe and S-Adenosyl-L-homocysteine===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_17686489}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 17686489 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_17686489}}		{{ABSTRACT_PUBMED_17686489}}

	==About this Structure==		==About this Structure==
-	~~2P41~~ is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA].	+	[[2p41]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA].

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~17686489~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:017686489</ref><references group="xtra"/>
	[[Category: Dengue virus 2]]		[[Category: Dengue virus 2]]
	[[Category: RNA-directed RNA polymerase]]		[[Category: RNA-directed RNA polymerase]]
Line 32:		Line 20:
	[[Category: Msgp]]		[[Category: Msgp]]
	[[Category: Structural genomic]]		[[Category: Structural genomic]]
		+	[[Category: Transferase]]
	[[Category: Viral enzymes involved in replication]]		[[Category: Viral enzymes involved in replication]]
-	[[Category: Viral protein~~,transferase~~]]	+	[[Category: Viral protein]]
	[[Category: Vizier]]		[[Category: Vizier]]
-
-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 16:13:27 2009''

OCA at 14:13, 17 February 2009

OCA — Tue, 17 Feb 2009 14:13:29 GMT

←Older revision		Revision as of 14:13, 17 February 2009
Line 20:		Line 20:

	==About this Structure==		==About this Structure==
-	2P41 is a ~~[[Single protein]]~~ structure of sequence from [http://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA].	+	2P41 is a 1 chain structure of sequence from [http://en.wikipedia.org/wiki/Dengue_virus_2 Dengue virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2P41 OCA].

	==Reference==		==Reference==
-	Structural and functional analysis of methylation and 5'-RNA sequence requirements of short capped RNAs by the methyltransferase domain of dengue virus NS5., Egloff MP, Decroly E, Malet H, Selisko B, Benarroch D, Ferron F, Canard B, J Mol Biol. 2007 Sep 21;372(3):723-36. Epub 2007 Jul 12. PMID:~~[http:~~//~~www.ncbi.nlm.nih.gov/pubmed/17686489 17686489]~~	+	<ref group="xtra">PMID:17686489</ref><references group="xtra"/>
	[[Category: Dengue virus 2]]		[[Category: Dengue virus 2]]
	[[Category: RNA-directed RNA polymerase]]		[[Category: RNA-directed RNA polymerase]]
-	[[Category: Single protein]]
	[[Category: Egloff, M P.]]		[[Category: Egloff, M P.]]
	[[Category: MSGP, Marseilles Structural Genomics Program.@.AFMB.]]		[[Category: MSGP, Marseilles Structural Genomics Program.@.AFMB.]]
Line 37:		Line 36:
	[[Category: Vizier]]		[[Category: Vizier]]

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Mon Jul 28 22~~:30:~~10 2008~~''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Feb 17 16:13:27 2009''