3n6n - Revision history

OCA at 16:43, 1 November 2023

2023-11-01T16:43:59Z

←Older revision		Revision as of 16:43, 1 November 2023
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	<StructureSection load='3n6n' size='340' side='right'caption='[[3n6n]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='3n6n' size='340' side='right'caption='[[3n6n]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3n6n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Ev-71 Ev-71~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3N6N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3n6n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Enterovirus_A71 Enterovirus A71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3N6N FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=BUP:5~~-~~BROMOURIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>BUP</scene>~~, ~~<scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</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]] 2.9Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"><~~div style~~='~~overflow~~: ~~auto; max~~-~~height: 3em;~~'>~~[[3n6l\|3n6l]]~~, ~~[[3n6m\|3n6m]]~~</~~div~~></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BUP:5-BROMOURIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>BUP</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</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=3n6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n6n OCA], [https://pdbe.org/3n6n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3n6n RCSB], [https://www.ebi.ac.uk/pdbsum/3n6n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3n6n 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=3n6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n6n OCA], [https://pdbe.org/3n6n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3n6n RCSB], [https://www.ebi.ac.uk/pdbsum/3n6n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3n6n ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/D3K0N8_HE71 D3K0N8_HE71] Acts as a primer for viral RNA replication and remains covalently bound to viral genomic RNA. VPg is uridylylated prior to priming replication into VPg-pUpU (By similarity). The oriI viral genomic sequence may act as a template for this. The VPg-pUpU is then used as primer on the genomic RNA poly(A) by the RNA-dependent RNA polymerase to replicate the viral genome (By similarity). Following genome release from the infecting virion in the cytoplasm, the VPg-RNA linkage is probably removed by host TDP2 (By similarity). During the late stage of the replication cycle, host TDP2 is excluded from sites of viral RNA synthesis and encapsidation, allowing for the generation of progeny virions.[ARBA:ARBA00024846] Capsid protein VP0: Component of immature procapsids, which is cleaved into capsid proteins VP4 and VP2 after maturation. Allows the capsid to remain inactive before the maturation step.[RuleBase:RU364118] Capsid protein VP1: Forms an icosahedral capsid of pseudo T=3 symmetry with capsid proteins VP2 and VP3. The capsid is 300 Angstroms in diameter, composed of 60 copies of each capsid protein and enclosing the viral positive strand RNA genome. Capsid protein VP1 mainly forms the vertices of the capsid. Capsid protein VP1 interacts with host cell receptor to provide virion attachment to target host cells. This attachment induces virion internalization. Tyrosine kinases are probably involved in the entry process. After binding to its receptor, the capsid undergoes conformational changes. Capsid protein VP1 N-terminus (that contains an amphipathic alpha-helix) and capsid protein VP4 are externalized. Together, they shape a pore in the host membrane through which viral genome is translocated to host cell cytoplasm. After genome has been released, the channel shrinks.[RuleBase:RU364118] Capsid protein VP2: Forms an icosahedral capsid of pseudo T=3 symmetry with capsid proteins VP2 and VP3. The capsid is 300 Angstroms in diameter, composed of 60 copies of each capsid protein and enclosing the viral positive strand RNA genome.[RuleBase:RU364118] Capsid protein VP3: Forms an icosahedral capsid of pseudo T=3 symmetry with capsid proteins VP2 and VP3. The capsid is 300 Angstroms in diameter, composed of 60 copies of each capsid protein and enclosing the viral positive strand RNA genome.[RuleBase:RU364118] Capsid protein VP4: Lies on the inner surface of the capsid shell. After binding to the host receptor, the capsid undergoes conformational changes. Capsid protein VP4 is released, Capsid protein VP1 N-terminus is externalized, and together, they shape a pore in the host membrane through which the viral genome is translocated into the host cell cytoplasm.[RuleBase:RU364118] Component of immature procapsids, which is cleaved into capsid proteins VP4 and VP2 after maturation (By similarity). Allows the capsid to remain inactive before the maturation step.[ARBA:ARBA00025202] Forms an icosahedral capsid of pseudo T=3 symmetry with capsid proteins VP2 and VP3 (By similarity). The capsid is 300 Angstroms in diameter, composed of 60 copies of each capsid protein and enclosing the viral positive strand RNA genome.[ARBA:ARBA00025306] Lies on the inner surface of the capsid shell (By similarity). After binding to the host receptor, the capsid undergoes conformational changes (By similarity). Capsid protein VP4 is released, Capsid protein VP1 N-terminus is externalized, and together, they shape a pore in the host membrane through which the viral genome is translocated into the host cell cytoplasm.[ARBA:ARBA00024643] Protease 2A: Cysteine protease that cleaves viral polyprotein and specific host proteins.[RuleBase:RU364118] Protease 3C: Major viral protease that mediates proteolytic processing of the polyprotein. Cleaves host EIF5B, contributing to host translation shutoff. Cleaves also host PABPC1, contributing to host translation shutoff.[RuleBase:RU364118] Protein 2B: Plays an essential role in the virus replication cycle by acting as a viroporin. Creates a pore in the host reticulum endoplasmic and as a consequence releases Ca2+ in the cytoplasm of infected cell. In turn, high levels of cytoplasmic calcium may trigger membrane trafficking and transport of viral ER-associated proteins to viroplasms, sites of viral genome replication.[RuleBase:RU364118] Protein 2C: Induces and associates with structural rearrangements of intracellular membranes. Displays RNA-binding, nucleotide binding and NTPase activities. May play a role in virion morphogenesis and viral RNA encapsidation by interacting with the capsid protein VP3.[RuleBase:RU364118] Protein 3A: Localizes the viral replication complex to the surface of membranous vesicles. It inhibits host cell endoplasmic reticulum-to-Golgi apparatus transport and causes the disassembly of the Golgi complex, possibly through GBF1 interaction. This would result in depletion of MHC, trail receptors and IFN receptors at the host cell surface.[RuleBase:RU364118] Protein 3AB: Localizes the viral replication complex to the surface of membranous vesicles. Together with protein 3CD binds the Cis-Active RNA Element (CRE) which is involved in RNA synthesis initiation. Acts as a cofactor to stimulate the activity of 3D polymerase, maybe through a nucleid acid chaperone activity.[RuleBase:RU364118] Protein 3CD: Involved in the viral replication complex and viral polypeptide maturation. It exhibits protease activity with a specificity and catalytic efficiency that is different from protease 3C. Protein 3CD lacks polymerase activity. Protein 3CD binds to the 5'UTR of the viral genome.[RuleBase:RU364118] RNA-directed RNA polymerase: Replicates the viral genomic RNA on the surface of intracellular membranes. May form linear arrays of subunits that propagate along a strong head-to-tail interaction called interface-I. Covalently attaches UMP to a tyrosine of VPg, which is used to prime RNA synthesis. The positive stranded RNA genome is first replicated at virus induced membranous vesicles, creating a dsRNA genomic replication form. This dsRNA is then used as template to synthesize positive stranded RNA genomes. ss(+)RNA genomes are either translated, replicated or encapsidated.[RuleBase:RU364118] Viral protein genome-linked: acts as a primer for viral RNA replication and remains covalently bound to viral genomic RNA. VPg is uridylylated prior to priming replication into VPg-pUpU. The oriI viral genomic sequence may act as a template for this. The VPg-pUpU is then used as primer on the genomic RNA poly(A) by the RNA-dependent RNA polymerase to replicate the viral genome.[RuleBase:RU364118]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Ev-71~~]]	+	[[Category: Enterovirus A71]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Lou~~, Z Y~~]]	+	[[Category: Lou ZY]]
-	[[Category: Miao, Y]]	+	[[Category: Miao Y]]
-	[[Category: Rao~~, Z H~~]]	+	[[Category: Rao ZH]]
-	[[Category: Wu, Y]]	+	[[Category: Wu Y]]
-	[[Category: Yu, Y]]	+	[[Category: Yu Y]]
-	~~[[Category: Br-utp]]~~	+
-	~~[[Category: Ev71]]~~	+
-	~~[[Category: Rdrp]]~~	+
-	~~[[Category: Transferase~~]]	+

OCA at 18:32, 27 July 2022

2022-07-27T18:32:29Z

←Older revision		Revision as of 18:32, 27 July 2022
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	<StructureSection load='3n6n' size='340' side='right'caption='[[3n6n]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='3n6n' size='340' side='right'caption='[[3n6n]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3n6n]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Ev-71 Ev-71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=3N6N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3n6n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ev-71 Ev-71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3N6N FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BUP:5-BROMOURIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>BUP</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BUP:5-BROMOURIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>BUP</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3n6l\|3n6l]], [[3n6m\|3n6m]]</td></tr>	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[3n6l\|3n6l]], [[3n6m\|3n6m]]</div></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=3n6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n6n OCA], [~~http~~://pdbe.org/3n6n PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3n6n RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3n6n PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3n6n 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=3n6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n6n OCA], [https://pdbe.org/3n6n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3n6n RCSB], [https://www.ebi.ac.uk/pdbsum/3n6n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3n6n ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 09:02, 21 October 2020

2020-10-21T09:02:04Z

←Older revision		Revision as of 09:02, 21 October 2020
Line 1:		Line 1:

	==crystal structure of EV71 RdRp in complex with Br-UTP==		==crystal structure of EV71 RdRp in complex with Br-UTP==
-	<StructureSection load='3n6n' size='340' side='right' caption='[[3n6n]], [[Resolution\|resolution]] 2.90Å' scene=''>	+	<StructureSection load='3n6n' size='340' side='right'caption='[[3n6n]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3n6n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ev-71 Ev-71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3N6N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3n6n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ev-71 Ev-71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3N6N FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BUP:5-BROMOURIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>BUP</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BUP:5-BROMOURIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>BUP</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3n6l\|3n6l]], [[3n6m\|3n6m]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3n6l\|3n6l]], [[3n6m\|3n6m]]</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=3n6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n6n OCA], [http://pdbe.org/3n6n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3n6n RCSB], [http://www.ebi.ac.uk/pdbsum/3n6n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3n6n 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=3n6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n6n OCA], [http://pdbe.org/3n6n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3n6n RCSB], [http://www.ebi.ac.uk/pdbsum/3n6n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3n6n ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 19:		Line 19:

	==See Also==		==See Also==
-	*[[RNA polymerase\|RNA polymerase]]	+	*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 25:		Line 25:
	</StructureSection>		</StructureSection>
	[[Category: Ev-71]]		[[Category: Ev-71]]
		+	[[Category: Large Structures]]
	[[Category: Lou, Z Y]]		[[Category: Lou, Z Y]]
	[[Category: Miao, Y]]		[[Category: Miao, Y]]

OCA at 14:24, 4 August 2016

2016-08-04T14:24:22Z

←Older revision		Revision as of 14:24, 4 August 2016
Line 1:		Line 1:
		+
	==crystal structure of EV71 RdRp in complex with Br-UTP==		==crystal structure of EV71 RdRp in complex with Br-UTP==
	<StructureSection load='3n6n' size='340' side='right' caption='[[3n6n]], [[Resolution\|resolution]] 2.90Å' scene=''>		<StructureSection load='3n6n' size='340' side='right' caption='[[3n6n]], [[Resolution\|resolution]] 2.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[3n6n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Human_enterovirus_71 Human enterovirus~~ 71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3N6N FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[3n6n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Ev-71 Ev-71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3N6N FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BUP:5-BROMOURIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>BUP</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BUP:5-BROMOURIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>BUP</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3n6l\|3n6l]], [[3n6m\|3n6m]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3n6l\|3n6l]], [[3n6m\|3n6m]]</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=3n6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n6n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3n6n RCSB], [http://www.ebi.ac.uk/pdbsum/3n6n 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=3n6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n6n OCA], [http://pdbe.org/3n6n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3n6n RCSB], [http://www.ebi.ac.uk/pdbsum/3n6n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3n6n ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	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 3n6n" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 22:		Line 24:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Human enterovirus~~ 71]]	+	[[Category: Ev-71]]
	[[Category: Lou, Z Y]]		[[Category: Lou, Z Y]]
	[[Category: Miao, Y]]		[[Category: Miao, Y]]

OCA at 10:01, 9 December 2014

2014-12-09T10:01:41Z

←Older revision		Revision as of 10:01, 9 December 2014
Line 1:		Line 1:
-	[[~~Image:~~3n6n.~~png~~\|~~left~~\|~~200px~~]]	+	==crystal structure of EV71 RdRp in complex with Br-UTP==
		+	<StructureSection load='3n6n' size='340' side='right' caption='[[3n6n]], [[Resolution\|resolution]] 2.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[3n6n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_enterovirus_71 Human enterovirus 71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3N6N FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=BUP:5-BROMOURIDINE+5-(TETRAHYDROGEN+TRIPHOSPHATE)'>BUP</scene>, <scene name='pdbligand=NI:NICKEL+(II)+ION'>NI</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3n6l\|3n6l]], [[3n6m\|3n6m]]</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=3n6n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3n6n OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3n6n RCSB], [http://www.ebi.ac.uk/pdbsum/3n6n PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Enterovirus 71 (EV71), one of the major causative agents for hand-foot-and-mouth disease (HFMD), has caused more than 100 deaths among Chinese children since March 2008. The EV71 genome encodes an RNAdependent RNA polymerase (RdRp), denoted 3D(pol), which is central for viral genome replication and is a key target for the discovery of specific antiviral therapeutics. Here we report the crystal structures of EV71 RdRp (3D(pol)) and in complex with substrate guanosine-5'-triphosphate and analog 5-bromouridine-5'-triphosphate best to 2.4 A resolution. The structure of EV71 RdRp (3D(pol)) has a wider open thumb domain compared with the most closely related crystal structure of poliovirus RdRp. And the EV71 RdRp (3D(pol)) complex with GTP or Br-UTP bounded shows two distinct movements of the polymerase by substrate or analogue binding. The model of the complex with the template:primer derived by superimposition with foot-and-mouth disease virus (FMDV) 3D/RNA complex reveals the likely recognition and binding of template:primer RNA by the polymerase. These results together provide a molecular basis for EV71 RNA replication and reveal a potential target for anti-EV71 drug discovery.

-	~~{{STRUCTURE_3n6n\| PDB=3n6n \| SCENE= }}~~	+	Structures of EV71 RNA-dependent RNA polymerase in complex with substrate and analogue provide a drug target against the hand-foot-and-mouth disease pandemic in China.,Wu Y, Lou Z, Miao Y, Yu Y, Dong H, Peng W, Bartlam M, Li X, Rao Z Protein Cell. 2010 May;1(5):491-500. Epub 2010 Jun 4. PMID:21203964<ref>PMID:21203964</ref>

-	~~===crystal structure~~ of ~~EV71 RdRp in complex with Br-UTP===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21203964}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[3n6n]] is a 1 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Human_enterovirus_71 Human enterovirus 71]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA].~~	+

	==See Also==		==See Also==
	*[[RNA polymerase\|RNA polymerase]]		*[[RNA polymerase\|RNA polymerase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021203964<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: Human enterovirus 71]]		[[Category: Human enterovirus 71]]
-	[[Category: Lou, Z Y.]]	+	[[Category: Lou, Z Y]]
-	[[Category: Miao, Y.]]	+	[[Category: Miao, Y]]
-	[[Category: Rao, Z H.]]	+	[[Category: Rao, Z H]]
-	[[Category: Wu, Y.]]	+	[[Category: Wu, Y]]
-	[[Category: Yu, Y.]]	+	[[Category: Yu, Y]]
	[[Category: Br-utp]]		[[Category: Br-utp]]
	[[Category: Ev71]]		[[Category: Ev71]]
	[[Category: Rdrp]]		[[Category: Rdrp]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 15:27, 20 October 2012

2012-10-20T15:27:03Z

←Older revision		Revision as of 15:27, 20 October 2012
Line 8:		Line 8:

	==About this Structure==		==About this Structure==
-	[[3n6n]] is a 1 chain structure ~~of [[RNA polymerase]]~~ with sequence from [http://en.wikipedia.org/wiki/Human_enterovirus_71 Human enterovirus 71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA].	+	[[3n6n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_enterovirus_71 Human enterovirus 71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA].

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

OCA at 18:25, 26 July 2012

2012-07-26T18:25:06Z

←Older revision		Revision as of 18:25, 26 July 2012
Line 1:		Line 1:
-	[[Image:3n6n.~~jpg~~\|left\|200px]]	+	[[Image:3n6n.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_3n6n", 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_3n6n\| PDB=3n6n \| SCENE= }}		{{STRUCTURE_3n6n\| PDB=3n6n \| SCENE= }}

	===crystal structure of EV71 RdRp in complex with Br-UTP===		===crystal structure of EV71 RdRp in complex with Br-UTP===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21203964}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21203964 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21203964}}		{{ABSTRACT_PUBMED_21203964}}

	==About this Structure==		==About this Structure==
-	[[3n6n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_enterovirus_71 Human enterovirus 71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA].	+	[[3n6n]] is a 1 chain structure of [[RNA polymerase]] with sequence from [http://en.wikipedia.org/wiki/Human_enterovirus_71 Human enterovirus 71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA].
		+
		+	==See Also==
		+	*[[RNA polymerase\|RNA polymerase]]

	==Reference==		==Reference==

OCA: Protected "3n6n" [edit=sysop:move=sysop]

2011-06-15T06:18:42Z

Protected "3n6n" [edit=sysop:move=sysop]

←Older revision

Revision as of 06:18, 15 June 2011

OCA at 06:18, 15 June 2011

2011-06-15T06:18:38Z

←Older revision		Revision as of 06:18, 15 June 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:3n6n.jpg\|left\|200px]]

-	The ~~entry 3n6n~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_3n6n", 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_3n6n\| PDB=3n6n \| SCENE= }}

-	~~Authors: Wu, Y., Lou, Z.Y., Miao, Y., Yu, Y., Rao, Z.H.~~	+	===crystal structure of EV71 RdRp in complex with Br-UTP===

-	Description: crystal structure of EV71 RdRp in complex with Br-UTP

-	~~''Page seeded by~~ [http://oca.weizmann.ac.il/oca OCA ] ~~on Wed Jun 23 08~~:42:~~17 2010''~~	+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21203964}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21203964 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21203964}}
		+
		+	==About this Structure==
		+	[[3n6n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Human_enterovirus_71 Human enterovirus 71]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3N6N OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:021203964</ref><references group="xtra"/>
		+	[[Category: Human enterovirus 71]]
		+	[[Category: Lou, Z Y.]]
		+	[[Category: Miao, Y.]]
		+	[[Category: Rao, Z H.]]
		+	[[Category: Wu, Y.]]
		+	[[Category: Yu, Y.]]
		+	[[Category: Br-utp]]
		+	[[Category: Ev71]]
		+	[[Category: Rdrp]]
		+	[[Category: Transferase]]

OCA at 04:36, 23 June 2010

2010-06-23T04:36:59Z

←Older revision		Revision as of 04:36, 23 June 2010
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 3n6n is ON HOLD	+	The entry 3n6n is ON HOLD until Paper Publication

-	Authors: Wu, Y., Rao, Z.H.	+	Authors: Wu, Y., Lou, Z.Y., Miao, Y., Yu, Y., Rao, Z.H.

	Description: crystal structure of EV71 RdRp in complex with Br-UTP		Description: crystal structure of EV71 RdRp in complex with Br-UTP

-	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 2 08:29:29 2010''	+	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jun 23 08:42:17 2010''