5msg - Revision history

OCA at 12:43, 6 March 2024

2024-03-06T12:43:09Z

← Older revision		Revision as of 12:43, 6 March 2024
Line 10:		Line 10:
	== 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 polymerase replicates, via a complementary RNA intermediate (cRNA), and transcribes the eight viral RNA (vRNA) genome segments. To initiate RNA synthesis it is bound to the conserved 5' and 3' extremities of the vRNA or cRNA (the 'promoter'). 5'-3' base-pairing in the distal promoter region is essential to position the template RNA at the polymerase active site, as shown by a new crystal structure with the 3' end threading through the template entry tunnel. We develop fluorescence polarization assays to quantify initiation of cap-primed (transcription) or unprimed (replication) RNA synthesis by recombinant influenza B polymerase bound to the vRNA or cRNA promoter. The rate-limiting step is formation of a primed initiation complex with minimally ApG required to stabilize the 3' end of the template within the active-site. Polymerase bound to the vRNA promoter initiates RNA synthesis terminally, while the cRNA promoter directs internal initiation at a significantly lower rate. Progression to elongation requires breaking the promoter 5'-3' base-pairing region and favourable compensation by the emerging template-product base-pairs. The RNA synthesis assay is adaptable to high-throughput screening for polymerase inhibitors. In a pilot study, we find that initiation at the cRNA promoter is unusually susceptible to inhibition by 2'F-2'dNTPs.

	An in vitro fluorescence based study of initiation of RNA synthesis by influenza B polymerase.,Reich S, Guilligay D, Cusack S Nucleic Acids Res. 2017 Jan 26. pii: gkx043. doi: 10.1093/nar/gkx043. PMID:28126917<ref>PMID:28126917</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 5msg" 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 17:48, 8 November 2023

2023-11-08T17:48:10Z

← Older revision		Revision as of 17:48, 8 November 2023
Line 3:		Line 3:
	<StructureSection load='5msg' size='340' side='right'caption='[[5msg]], [[Resolution\|resolution]] 3.80Å' scene=''>		<StructureSection load='5msg' size='340' side='right'caption='[[5msg]], [[Resolution\|resolution]] 3.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5msg]] is a 6 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~9infb 9infb~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MSG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5MSG FirstGlance]. <br>		<table><tr><td colspan='2'>[[5msg]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_B_virus Influenza B virus] 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=5MSG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5MSG FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</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]] 3.8Å</td></tr>
	<tr id='~~NonStdRes~~'><td class="sblockLbl"><b>[[~~Non-Standard_Residue~~\|~~NonStd Res~~:]]</b></td><td class="sblockDat"><scene name='pdbligand=M7G:7N-METHYL-8-HYDROGUANOSINE-5-DIPHOSPHATE'>M7G</scene>~~</td></tr>~~		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=M7G:7N-METHYL-8-HYDROGUANOSINE-5-DIPHOSPHATE'>M7G</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11520 9INFB]), PB1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11520 9INFB]), ~~PB2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11520 9INFB])~~<~~/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=5msg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5msg OCA], [https://pdbe.org/5msg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5msg RCSB], [https://www.ebi.ac.uk/pdbsum/5msg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5msg 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~~://proteopedia.org/fgij/fg.htm?mol=5msg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5msg OCA], [~~http~~://pdbe.org/5msg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5msg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5msg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5msg 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 26:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Influenza B virus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~RNA-directed RNA polymerase~~]]		[[Category: Synthetic construct]]
	[[Category: Cusack, S]]		[[Category: Cusack S]]
	[[Category: Guilligay, D]]		[[Category: Guilligay D]]
	~~[[Category: Capped rna primer]]~~
	~~[[Category: Influenza b virus rna-dependent rna polymerase]]~~
	~~[[Category: Viral protein]]~~
	~~[[Category: Vrna promoter~~]]

OCA at 07:28, 19 August 2020

2020-08-19T07:28:06Z

← Older revision		Revision as of 07:28, 19 August 2020
Line 1:		Line 1:

	==Influenza B polymerase bound to vRNA promoter and capped RNA primer==		==Influenza B polymerase bound to vRNA promoter and capped RNA primer==
	<StructureSection load='5msg' size='340' side='right' caption='[[5msg]], [[Resolution\|resolution]] 3.80Å' scene=''>		<StructureSection load='5msg' size='340' side='right'caption='[[5msg]], [[Resolution\|resolution]] 3.80Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5msg]] is a 6 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MSG OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca.weizmann.ac~~.~~il/oca-docs~~/fgij/fg.htm?mol=5MSG FirstGlance]. <br>		<table><tr><td colspan='2'>[[5msg]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/9infb 9infb]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5MSG OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5MSG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=M7G:7N-METHYL-8-HYDROGUANOSINE-5-DIPHOSPHATE'>M7G</scene></td></tr>		<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=M7G:7N-METHYL-8-HYDROGUANOSINE-5-DIPHOSPHATE'>M7G</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">PA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11520 9INFB]), PB1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11520 9INFB]), PB2 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=11520 9INFB])</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=5msg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5msg OCA], [http://pdbe.org/5msg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5msg RCSB], [http://www.ebi.ac.uk/pdbsum/5msg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5msg 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=5msg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5msg OCA], [http://pdbe.org/5msg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5msg RCSB], [http://www.ebi.ac.uk/pdbsum/5msg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5msg ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 18:		Line 19:
	</div>		</div>
	<div class="pdbe-citations 5msg" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5msg" style="background-color:#fffaf0;"></div>

			==See Also==
			*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
			[[Category: Large Structures]]
	[[Category: RNA-directed RNA polymerase]]		[[Category: RNA-directed RNA polymerase]]
	[[Category: Cusack, S]]		[[Category: Cusack, S]]

OCA at 09:27, 10 March 2017

2017-03-10T09:27:47Z

@@ Line 1: / Line 1: @@
-The entry 5msg is ON HOLD  until Paper Publication
+==Influenza B polymerase bound to vRNA promoter and capped RNA primer==
-Authors:
+An in vitro fluorescence based study of initiation of RNA synthesis by influenza B polymerase.,Reich S, Guilligay D, Cusack S Nucleic Acids Res. 2017 Jan 26. pii: gkx043. doi: 10.1093/nar/gkx043. PMID:28126917<ref>PMID:28126917</ref>
-Description:
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-[[Category: Unreleased Structures]]
+</div>

OCA: Protected "5msg" [edit=sysop:move=sysop]

2017-01-18T13:09:30Z

Protected "5msg" [edit=sysop:move=sysop]

← Older revision	Revision as of 13:09, 18 January 2017
(No difference)

OCA: New page: '''Unreleased structure''' The entry 5msg is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

2017-01-18T13:09:29Z

New page: '''Unreleased structure''' The entry 5msg is ON HOLD until Paper Publication Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5msg is ON HOLD until Paper Publication

Authors:

Description:
[[Category: Unreleased Structures]]