5d2o - Revision history

OCA at 08:42, 27 September 2023

2023-09-27T08:42:43Z

←Older revision		Revision as of 08:42, 27 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5d2o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_A_virus_(A/California/04/2009(H1N1)) Influenza A virus (A/California/04/2009(H1N1))]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5D2O FirstGlance]. <br>		<table><tr><td colspan='2'>[[5d2o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_A_virus_(A/California/04/2009(H1N1)) Influenza A virus (A/California/04/2009(H1N1))]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5D2O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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]] 2.15Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</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=5d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d2o OCA], [https://pdbe.org/5d2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5d2o RCSB], [https://www.ebi.ac.uk/pdbsum/5d2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5d2o 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=5d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d2o OCA], [https://pdbe.org/5d2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5d2o RCSB], [https://www.ebi.ac.uk/pdbsum/5d2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5d2o ProSAT]</span></td></tr>
	</table>		</table>

OCA at 10:19, 21 June 2023

2023-06-21T10:19:22Z

←Older revision		Revision as of 10:19, 21 June 2023
Line 3:		Line 3:
	<StructureSection load='5d2o' size='340' side='right'caption='[[5d2o]], [[Resolution\|resolution]] 2.15Å' scene=''>		<StructureSection load='5d2o' size='340' side='right'caption='[[5d2o]], [[Resolution\|resolution]] 2.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5d2o]] is a 1 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~I09a0 I09a0~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D2O OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5D2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5d2o]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_A_virus_(A/California/04/2009(H1N1)) Influenza A virus (A/California/04/2009(H1N1))]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D2O OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5D2O FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cgv\|5cgv]], [[5ccy\|5ccy]], [[5cl0\|5cl0]], [[5czn\|5czn]], [[5d42\|5d42]]</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=5d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d2o OCA], [https://pdbe.org/5d2o PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5d2o RCSB], [https://www.ebi.ac.uk/pdbsum/5d2o PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5d2o ProSAT]</span></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=641501 I09A0])~~</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=5d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d2o OCA], [~~http~~://pdbe.org/5d2o PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5d2o RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5d2o PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5d2o ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/C3W5S0_I09A0 C3W5S0_I09A0]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 18:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 5d2o" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5d2o" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[RNA polymerase 3D structures\|RNA polymerase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: I09a0]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Kumar, G]]	+	[[Category: Kumar G]]
-	[[Category: White~~, S W]]~~	+	[[Category: White SW]]
-	~~[[Category: Endonuclease inhibitor]]~~	+
-	~~[[Category: Hydrolase]]~~	+
-	~~[[Category: Influenza]]~~	+
-	~~[[Category: Resistance]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 16:01, 11 December 2019

2019-12-11T16:01:30Z

←Older revision		Revision as of 16:01, 11 December 2019
Line 1:		Line 1:

	==2009 H1N1 PA endonuclease mutant F105S==		==2009 H1N1 PA endonuclease mutant F105S==
-	<StructureSection load='5d2o' size='340' side='right' caption='[[5d2o]], [[Resolution\|resolution]] 2.15Å' scene=''>	+	<StructureSection load='5d2o' size='340' side='right'caption='[[5d2o]], [[Resolution\|resolution]] 2.15Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5d2o]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5D2O FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5d2o]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/I09a0 I09a0]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5D2O FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cgv\|5cgv]], [[5ccy\|5ccy]], [[5cl0\|5cl0]], [[5czn\|5czn]], [[5d42\|5d42]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cgv\|5cgv]], [[5ccy\|5ccy]], [[5cl0\|5cl0]], [[5czn\|5czn]], [[5d42\|5d42]]</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=641501 I09A0])</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=5d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d2o OCA], [http://pdbe.org/5d2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d2o RCSB], [http://www.ebi.ac.uk/pdbsum/5d2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5d2o 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=5d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d2o OCA], [http://pdbe.org/5d2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d2o RCSB], [http://www.ebi.ac.uk/pdbsum/5d2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5d2o ProSAT]</span></td></tr>
	</table>		</table>
Line 21:		Line 22:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: I09a0]]
		+	[[Category: Large Structures]]
	[[Category: Kumar, G]]		[[Category: Kumar, G]]
	[[Category: White, S W]]		[[Category: White, S W]]

OCA at 10:33, 13 September 2017

2017-09-13T10:33:00Z

←Older revision		Revision as of 10:33, 13 September 2017
Line 6:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cgv\|5cgv]], [[5ccy\|5ccy]], [[5cl0\|5cl0]], [[5czn\|5czn]], [[5d42\|5d42]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cgv\|5cgv]], [[5ccy\|5ccy]], [[5cl0\|5cl0]], [[5czn\|5czn]], [[5d42\|5d42]]</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=5d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d2o OCA], [http://pdbe.org/5d2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d2o RCSB], [http://www.ebi.ac.uk/pdbsum/5d2o 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=5d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d2o OCA], [http://pdbe.org/5d2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d2o RCSB], [http://www.ebi.ac.uk/pdbsum/5d2o PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5d2o ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 16:54, 10 May 2016

2016-05-10T16:54:30Z

←Older revision		Revision as of 16:54, 10 May 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5d2o is ~~ON HOLD until Aug 05 2017~~	+	==2009 H1N1 PA endonuclease mutant F105S==
		+	<StructureSection load='5d2o' size='340' side='right' caption='[[5d2o]], [[Resolution\|resolution]] 2.15Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5d2o]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D2O OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5D2O FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cgv\|5cgv]], [[5ccy\|5ccy]], [[5cl0\|5cl0]], [[5czn\|5czn]], [[5d42\|5d42]]</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=5d2o FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d2o OCA], [http://pdbe.org/5d2o PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d2o RCSB], [http://www.ebi.ac.uk/pdbsum/5d2o PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The influenza endonuclease is an essential subdomain of the viral RNA polymerase. It processes host pre-mRNAs to serve as primers for viral mRNA and is an attractive target for antiinfluenza drug discovery. Compound L-742,001 is a prototypical endonuclease inhibitor, and we found that repeated passaging of influenza virus in the presence of this drug did not lead to the development of resistant mutant strains. Reduced sensitivity to L-742,001 could only be induced by creating point mutations via a random mutagenesis strategy. These mutations mapped to the endonuclease active site where they can directly impact inhibitor binding. Engineered viruses containing the mutations showed resistance to L-742,001 both in vitro and in vivo, with only a modest reduction in fitness. Introduction of the mutations into a second virus also increased its resistance to the inhibitor. Using the isolated wild-type and mutant endonuclease domains, we used kinetics, inhibitor binding and crystallography to characterize how the two most significant mutations elicit resistance to L-742,001. These studies lay the foundation for the development of a new class of influenza therapeutics with reduced potential for the development of clinical endonuclease inhibitor-resistant influenza strains.

-	~~Authors: Kumar~~, G., ~~White~~, S.W.	+	Identification and characterization of influenza variants resistant to a viral endonuclease inhibitor.,Song MS, Kumar G, Shadrick WR, Zhou W, Jeevan T, Li Z, Slavish PJ, Fabrizio TP, Yoon SW, Webb TR, Webby RJ, White SW Proc Natl Acad Sci U S A. 2016 Mar 29;113(13):3669-74. doi:, 10.1073/pnas.1519772113. Epub 2016 Mar 14. PMID:26976575<ref>PMID:26976575</ref>

-	~~Description: 2009 H1N1 PA endonuclease mutant F105S~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category: Unreleased Structures]]~~	+	</div>
-	~~[[Category: White~~, S.~~W]]~~	+	<div class="pdbe-citations 5d2o" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Kumar, G]]		[[Category: Kumar, G]]
		+	[[Category: White, S W]]
		+	[[Category: Endonuclease inhibitor]]
		+	[[Category: Hydrolase]]
		+	[[Category: Influenza]]
		+	[[Category: Resistance]]
		+	[[Category: Viral protein]]

OCA at 11:18, 20 August 2015

2015-08-20T11:18:09Z

←Older revision		Revision as of 11:18, 20 August 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5d2o is ON HOLD	+	The entry 5d2o is ON HOLD until Aug 05 2017

	Authors: Kumar, G., White, S.W.		Authors: Kumar, G., White, S.W.

OCA: Protected "5d2o" [edit=sysop:move=sysop]

2015-08-12T13:45:25Z

Protected "5d2o" [edit=sysop:move=sysop]

←Older revision

Revision as of 13:45, 12 August 2015

OCA: New page: '''Unreleased structure''' The entry 5d2o is ON HOLD Authors: Kumar, G., White, S.W. Description: 2009 H1N1 PA endonuclease mutant F105S Category: Unreleased Structures [[Category:...

2015-08-12T13:45:24Z

New page: '''Unreleased structure''' The entry 5d2o is ON HOLD Authors: Kumar, G., White, S.W. Description: 2009 H1N1 PA endonuclease mutant F105S Category: Unreleased Structures [[Category:...

New page

'''Unreleased structure'''

The entry 5d2o is ON HOLD

Authors: Kumar, G., White, S.W.

Description: 2009 H1N1 PA endonuclease mutant F105S
[[Category: Unreleased Structures]]
[[Category: White, S.W]]
[[Category: Kumar, G]]