6qcx - Revision history

OCA at 13:05, 1 March 2024

OCA — Fri, 01 Mar 2024 13:05:24 GMT

←Older revision		Revision as of 13:05, 1 March 2024
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	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/Q5V8Z9_9INFB Q5V8Z9_9INFB]		[https://www.uniprot.org/uniprot/Q5V8Z9_9INFB Q5V8Z9_9INFB]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Influenza virus RNA-dependent RNA polymerase uses unique mechanisms to transcribe its single-stranded genomic viral RNA (vRNA) into messenger RNA. The polymerase is initially bound to a promoter comprising the partially base-paired 3' and 5' extremities of the RNA. A short, capped primer, 'cap-snatched' from a nascent host polymerase II transcript, is directed towards the polymerase active site to initiate RNA synthesis. Here we present structural snapshots, as determined by X-ray crystallography and cryo-electron microscopy, of actively initiating influenza polymerase as it transitions towards processive elongation. Unexpected conformational changes unblock the active site cavity to allow establishment of a nine-base-pair template-product RNA duplex before the strands separate into distinct exit channels. Concomitantly, as the template translocates, the promoter base pairs are broken and the template entry region is remodeled. These structures reveal details of the influenza polymerase active site that will help optimize nucleoside analogs or other compounds that directly inhibit viral RNA synthesis.
-
-	Structural snapshots of actively transcribing influenza polymerase.,Kouba T, Drncova P, Cusack S Nat Struct Mol Biol. 2019 Jun;26(6):460-470. doi: 10.1038/s41594-019-0232-z. Epub, 2019 Jun 3. PMID:31160782<ref>PMID:31160782</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 6qcx" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]		*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 11:57, 24 January 2024

OCA — Wed, 24 Jan 2024 11:57:58 GMT

←Older revision		Revision as of 11:57, 24 January 2024
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	<StructureSection load='6qcx' size='340' side='right'caption='[[6qcx]], [[Resolution\|resolution]] 3.08Å' scene=''>		<StructureSection load='6qcx' size='340' side='right'caption='[[6qcx]], [[Resolution\|resolution]] 3.08Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6qcx]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QCX OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6QCX FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6qcx]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_B_virus_(B/Memphis/13/2003) Influenza B virus (B/Memphis/13/2003)] 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=6QCX OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6QCX FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=MG:MAGNESIUM+ION'>MG</scene~~>, ~~<scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 3.08Å</td></tr>
-	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=8NK:7-METHYLGUANOSINE+5-DIPHOSPHATE'>8NK</scene><~~/td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=8NK:7-METHYLGUANOSINE+5-DIPHOSPHATE'>8NK</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>
-	~~<tr id~~='~~related'><td class~~=~~"sblockLbl"><b>[[Related_structure\|Related~~:~~]]</b~~></td>~~<td class="sblockDat">[[6qcv\|6qcv]]~~, ~~[[6qcw\|6qcw]]~~<~~/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=6qcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qcx OCA], [https://pdbe.org/6qcx PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6qcx RCSB], [https://www.ebi.ac.uk/pdbsum/6qcx PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6qcx ProSAT]</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=6qcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qcx OCA], [~~http~~://pdbe.org/6qcx PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6qcx RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6qcx PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6qcx ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q5V8Z9_9INFB Q5V8Z9_9INFB]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 19:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 6qcx" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6qcx" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~RNA-directed RNA polymerase~~]]	+	[[Category: Synthetic construct]]
-	[[Category: Cusack, S]]	+	[[Category: Cusack S]]
-	[[Category: Drncova, P]]	+	[[Category: Drncova P]]
-	~~[[Category: Rna dependent rna polymerase]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 06:22, 12 June 2019

OCA — Wed, 12 Jun 2019 06:22:36 GMT

←Older revision		Revision as of 06:22, 12 June 2019
Line 10:		Line 10:
	<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=6qcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qcx OCA], [http://pdbe.org/6qcx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qcx RCSB], [http://www.ebi.ac.uk/pdbsum/6qcx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qcx ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6qcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qcx OCA], [http://pdbe.org/6qcx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qcx RCSB], [http://www.ebi.ac.uk/pdbsum/6qcx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qcx ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Influenza virus RNA-dependent RNA polymerase uses unique mechanisms to transcribe its single-stranded genomic viral RNA (vRNA) into messenger RNA. The polymerase is initially bound to a promoter comprising the partially base-paired 3' and 5' extremities of the RNA. A short, capped primer, 'cap-snatched' from a nascent host polymerase II transcript, is directed towards the polymerase active site to initiate RNA synthesis. Here we present structural snapshots, as determined by X-ray crystallography and cryo-electron microscopy, of actively initiating influenza polymerase as it transitions towards processive elongation. Unexpected conformational changes unblock the active site cavity to allow establishment of a nine-base-pair template-product RNA duplex before the strands separate into distinct exit channels. Concomitantly, as the template translocates, the promoter base pairs are broken and the template entry region is remodeled. These structures reveal details of the influenza polymerase active site that will help optimize nucleoside analogs or other compounds that directly inhibit viral RNA synthesis.
		+
		+	Structural snapshots of actively transcribing influenza polymerase.,Kouba T, Drncova P, Cusack S Nat Struct Mol Biol. 2019 Jun;26(6):460-470. doi: 10.1038/s41594-019-0232-z. Epub, 2019 Jun 3. PMID:31160782<ref>PMID:31160782</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6qcx" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 22:54, 5 June 2019

OCA — Wed, 05 Jun 2019 22:54:36 GMT

←Older revision		Revision as of 22:54, 5 June 2019
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry 6qcx is ON HOLD until Paper Publication~~	+	==Crystal structure of influenza B polymerase initiation state with capped 15-mer RNA primer==
-		+	<StructureSection load='6qcx' size='340' side='right'caption='[[6qcx]], [[Resolution\|resolution]] 3.08Å' scene=''>
-	~~Authors: Cusack, S., Drncova, P.~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[6qcx]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6QCX OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6QCX FirstGlance]. <br>
-	~~Description:~~ Crystal structure of influenza B polymerase initiation state with capped 15-mer RNA primer	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=POP:PYROPHOSPHATE+2-'>POP</scene></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=8NK:7-METHYLGUANOSINE+5-DIPHOSPHATE'>8NK</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[6qcv\|6qcv]], [[6qcw\|6qcw]]</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=6qcx FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6qcx OCA], [http://pdbe.org/6qcx PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6qcx RCSB], [http://www.ebi.ac.uk/pdbsum/6qcx PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6qcx ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: RNA-directed RNA polymerase]]
		+	[[Category: Cusack, S]]
	[[Category: Drncova, P]]		[[Category: Drncova, P]]
-	[[Category: ~~Cusack, S~~]]	+	[[Category: Rna dependent rna polymerase]]
		+	[[Category: Viral protein]]

OCA: Protected "6qcx" [edit=sysop:move=sysop]

OCA — Wed, 09 Jan 2019 05:09:55 GMT

Protected "6qcx" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:09, 9 January 2019

OCA: New page: '''Unreleased structure''' The entry 6qcx is ON HOLD until Paper Publication Authors: Cusack, S., Drncova, P. Description: Crystal structure of influenza B polymerase initiation state ...

OCA — Wed, 09 Jan 2019 05:09:54 GMT

New page: '''Unreleased structure''' The entry 6qcx is ON HOLD until Paper Publication Authors: Cusack, S., Drncova, P. Description: Crystal structure of influenza B polymerase initiation state ...

New page

'''Unreleased structure'''

The entry 6qcx is ON HOLD until Paper Publication

Authors: Cusack, S., Drncova, P.

Description: Crystal structure of influenza B polymerase initiation state with capped 15-mer RNA primer
[[Category: Unreleased Structures]]
[[Category: Drncova, P]]
[[Category: Cusack, S]]