5d8u - Revision history

OCA at 08:44, 27 September 2023

OCA — Wed, 27 Sep 2023 08:44:22 GMT

←Older revision		Revision as of 08:44, 27 September 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5d8u]] 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=5D8U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5D8U FirstGlance]. <br>		<table><tr><td colspan='2'>[[5d8u]] 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=5D8U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5D8U FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0N8:(2Z)-4-[1-BENZYL-4-(4-CHLOROBENZYL)PIPERIDIN-4-YL]-2-HYDROXY-4-OXOBUT-2-ENOIC+ACID'>0N8</scene>, <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]] 2.29Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=0N8:(2Z)-4-[1-BENZYL-4-(4-CHLOROBENZYL)PIPERIDIN-4-YL]-2-HYDROXY-4-OXOBUT-2-ENOIC+ACID'>0N8</scene>, <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=5d8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d8u OCA], [https://pdbe.org/5d8u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5d8u RCSB], [https://www.ebi.ac.uk/pdbsum/5d8u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5d8u 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=5d8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d8u OCA], [https://pdbe.org/5d8u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5d8u RCSB], [https://www.ebi.ac.uk/pdbsum/5d8u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5d8u ProSAT]</span></td></tr>
	</table>		</table>

OCA at 10:26, 21 June 2023

OCA — Wed, 21 Jun 2023 10:26:12 GMT

←Older revision		Revision as of 10:26, 21 June 2023
Line 3:		Line 3:
	<StructureSection load='5d8u' size='340' side='right'caption='[[5d8u]], [[Resolution\|resolution]] 2.29Å' scene=''>		<StructureSection load='5d8u' size='340' side='right'caption='[[5d8u]], [[Resolution\|resolution]] 2.29Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5d8u]] 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=5D8U OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5D8U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5d8u]] 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=5D8U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5D8U FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0N8:(2Z)-4-[1-BENZYL-4-(4-CHLOROBENZYL)PIPERIDIN-4-YL]-2-HYDROXY-4-OXOBUT-2-ENOIC+ACID'>0N8</scene>, <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=0N8:(2Z)-4-[1-BENZYL-4-(4-CHLOROBENZYL)PIPERIDIN-4-YL]-2-HYDROXY-4-OXOBUT-2-ENOIC+ACID'>0N8</scene>, <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]], [[5d2o\|5d2o]], [[5d42\|5d42]], [[5d4g\|5d4g]], [[5czn\|5czn]], [[5d9j\|5d9j]]</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=5d8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d8u OCA], [https://pdbe.org/5d8u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5d8u RCSB], [https://www.ebi.ac.uk/pdbsum/5d8u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5d8u 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=5d8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d8u OCA], [~~http~~://pdbe.org/5d8u PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5d8u RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5d8u PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5d8u 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 5d8u" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5d8u" 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-hydrolase inhibitor complex]]~~	+
-	~~[[Category: Influenza]]~~	+
-	~~[[Category: Resistance]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 16:02, 11 December 2019

OCA — Wed, 11 Dec 2019 16:02:14 GMT

←Older revision		Revision as of 16:02, 11 December 2019
Line 1:		Line 1:

	==2009 H1N1 PA endonuclease mutant E119D in complex with L-742,001==		==2009 H1N1 PA endonuclease mutant E119D in complex with L-742,001==
-	<StructureSection load='5d8u' size='340' side='right' caption='[[5d8u]], [[Resolution\|resolution]] 2.29Å' scene=''>	+	<StructureSection load='5d8u' size='340' side='right'caption='[[5d8u]], [[Resolution\|resolution]] 2.29Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5d8u]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D8U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5D8U FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5d8u]] 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=5D8U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5D8U FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0N8:(2Z)-4-[1-BENZYL-4-(4-CHLOROBENZYL)PIPERIDIN-4-YL]-2-HYDROXY-4-OXOBUT-2-ENOIC+ACID'>0N8</scene>, <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=0N8:(2Z)-4-[1-BENZYL-4-(4-CHLOROBENZYL)PIPERIDIN-4-YL]-2-HYDROXY-4-OXOBUT-2-ENOIC+ACID'>0N8</scene>, <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]], [[5d2o\|5d2o]], [[5d42\|5d42]], [[5d4g\|5d4g]], [[5czn\|5czn]], [[5d9j\|5d9j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cgv\|5cgv]], [[5ccy\|5ccy]], [[5cl0\|5cl0]], [[5d2o\|5d2o]], [[5d42\|5d42]], [[5d4g\|5d4g]], [[5czn\|5czn]], [[5d9j\|5d9j]]</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=5d8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d8u OCA], [http://pdbe.org/5d8u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d8u RCSB], [http://www.ebi.ac.uk/pdbsum/5d8u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5d8u 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=5d8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d8u OCA], [http://pdbe.org/5d8u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d8u RCSB], [http://www.ebi.ac.uk/pdbsum/5d8u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5d8u 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 10:32, 13 September 2017

OCA — Wed, 13 Sep 2017 10:32:09 GMT

←Older revision		Revision as of 10:32, 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=0N8:(2Z)-4-[1-BENZYL-4-(4-CHLOROBENZYL)PIPERIDIN-4-YL]-2-HYDROXY-4-OXOBUT-2-ENOIC+ACID'>0N8</scene>, <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=0N8:(2Z)-4-[1-BENZYL-4-(4-CHLOROBENZYL)PIPERIDIN-4-YL]-2-HYDROXY-4-OXOBUT-2-ENOIC+ACID'>0N8</scene>, <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]], [[5d2o\|5d2o]], [[5d42\|5d42]], [[5d4g\|5d4g]], [[5czn\|5czn]], [[5d9j\|5d9j]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5cgv\|5cgv]], [[5ccy\|5ccy]], [[5cl0\|5cl0]], [[5d2o\|5d2o]], [[5d42\|5d42]], [[5d4g\|5d4g]], [[5czn\|5czn]], [[5d9j\|5d9j]]</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=5d8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d8u OCA], [http://pdbe.org/5d8u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d8u RCSB], [http://www.ebi.ac.uk/pdbsum/5d8u 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=5d8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d8u OCA], [http://pdbe.org/5d8u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d8u RCSB], [http://www.ebi.ac.uk/pdbsum/5d8u PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5d8u ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">

OCA at 18:48, 10 May 2016

OCA — Tue, 10 May 2016 18:48:49 GMT

←Older revision		Revision as of 18:48, 10 May 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5d8u is ~~ON HOLD until Aug 18 2017~~	+	==2009 H1N1 PA endonuclease mutant E119D in complex with L-742,001==
		+	<StructureSection load='5d8u' size='340' side='right' caption='[[5d8u]], [[Resolution\|resolution]] 2.29Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5d8u]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5D8U OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5D8U FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=0N8:(2Z)-4-[1-BENZYL-4-(4-CHLOROBENZYL)PIPERIDIN-4-YL]-2-HYDROXY-4-OXOBUT-2-ENOIC+ACID'>0N8</scene>, <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]], [[5d2o\|5d2o]], [[5d42\|5d42]], [[5d4g\|5d4g]], [[5czn\|5czn]], [[5d9j\|5d9j]]</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=5d8u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5d8u OCA], [http://pdbe.org/5d8u PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5d8u RCSB], [http://www.ebi.ac.uk/pdbsum/5d8u 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 E119D in complex with L-742~~,~~001~~	+	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 5d8u" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Kumar, G]]		[[Category: Kumar, G]]
		+	[[Category: White, S W]]
		+	[[Category: Endonuclease inhibitor]]
		+	[[Category: Hydrolase-hydrolase inhibitor complex]]
		+	[[Category: Influenza]]
		+	[[Category: Resistance]]
		+	[[Category: Viral protein]]

OCA at 13:17, 26 February 2016

OCA — Fri, 26 Feb 2016 13:17:33 GMT

←Older revision		Revision as of 13:17, 26 February 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5d8u is ON HOLD	+	The entry 5d8u is ON HOLD until Aug 18 2017

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

OCA: Protected "5d8u" [edit=sysop:move=sysop]

OCA — Wed, 26 Aug 2015 12:34:28 GMT

Protected "5d8u" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:34, 26 August 2015

OCA: New page: '''Unreleased structure''' The entry 5d8u is ON HOLD Authors: Kumar, G., White, S.W. Description: 2009 H1N1 PA endonuclease mutant E119D in complex with L-742,001 [[Category: Unrelease...

OCA — Wed, 26 Aug 2015 12:34:25 GMT

New page: '''Unreleased structure''' The entry 5d8u is ON HOLD Authors: Kumar, G., White, S.W. Description: 2009 H1N1 PA endonuclease mutant E119D in complex with L-742,001 [[Category: Unrelease...

New page

'''Unreleased structure'''

The entry 5d8u is ON HOLD

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

Description: 2009 H1N1 PA endonuclease mutant E119D in complex with L-742,001
[[Category: Unreleased Structures]]
[[Category: White, S.W]]
[[Category: Kumar, G]]