6w7a - Revision history

OCA at 09:16, 25 October 2023

OCA — Wed, 25 Oct 2023 09:16:28 GMT

←Older revision		Revision as of 09:16, 25 October 2023
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6w7a]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_A_virus Influenza A virus], [https://en.wikipedia.org/wiki/Influenza_A_virus_(A/Luxembourg/43/2009(H1N1)) Influenza A virus (A/Luxembourg/43/2009(H1N1))] 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=6W7A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6W7A FirstGlance]. <br>		<table><tr><td colspan='2'>[[6w7a]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_A_virus Influenza A virus], [https://en.wikipedia.org/wiki/Influenza_A_virus_(A/Luxembourg/43/2009(H1N1)) Influenza A virus (A/Luxembourg/43/2009(H1N1))] 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=6W7A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6W7A FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 2.09Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=6w7a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6w7a OCA], [https://pdbe.org/6w7a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6w7a RCSB], [https://www.ebi.ac.uk/pdbsum/6w7a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6w7a 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=6w7a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6w7a OCA], [https://pdbe.org/6w7a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6w7a RCSB], [https://www.ebi.ac.uk/pdbsum/6w7a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6w7a ProSAT]</span></td></tr>
	</table>		</table>

OCA at 09:43, 21 June 2023

OCA — Wed, 21 Jun 2023 09:43:35 GMT

←Older revision		Revision as of 09:43, 21 June 2023
Line 1:		Line 1:

-	====	+	==The crystal structure of the 2009/H1N1/California PA endonuclease mutant E119D bound to DNA oligomer TAGCAT (uncleaved, 5mM overnight DNA soak)==
-	<StructureSection load='6w7a' size='340' side='right'caption='[[6w7a]]' scene=''>	+	<StructureSection load='6w7a' size='340' side='right'caption='[[6w7a]], [[Resolution\|resolution]] 2.09Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6w7a]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_A_virus Influenza A virus], [https://en.wikipedia.org/wiki/Influenza_A_virus_(A/Luxembourg/43/2009(H1N1)) Influenza A virus (A/Luxembourg/43/2009(H1N1))] 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=6W7A OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6W7A FirstGlance]. <br>
-	</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=6w7a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6w7a OCA], [https://pdbe.org/6w7a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6w7a RCSB], [https://www.ebi.ac.uk/pdbsum/6w7a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6w7a ProSAT]</span></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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=6w7a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6w7a OCA], [https://pdbe.org/6w7a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6w7a RCSB], [https://www.ebi.ac.uk/pdbsum/6w7a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6w7a ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/C6H0Y9_9INFA C6H0Y9_9INFA]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The endonuclease activity within the influenza virus cap-snatching process is a proven therapeutic target. The anti-influenza drug baloxavir is highly effective, but is associated with resistance mutations that threaten its clinical efficacy. The endonuclease resides within the N-terminal domain of the PA subunit (PAN) of the influenza RNA dependent RNA polymerase, and we report here complexes of PAN with RNA and DNA oligonucleotides to understand its specificity and the structural basis of baloxavir resistance mutations. The RNA and DNA oligonucleotides bind within the substrate binding groove of PAN in a similar fashion, explaining the ability of the enzyme to cleave both substrates. The individual nucleotides occupy adjacent conserved pockets that flank the two-metal active site. However, the 2' OH of the RNA ribose moieties engage in additional interactions that appear to optimize the binding and cleavage efficiency for the natural substrate. The major baloxavir resistance mutation at position 38 is at the core of the substrate binding site, but structural studies and modeling suggest that it maintains the necessary virus fitness via compensating interactions with RNA. These studies will facilitate the development of new influenza therapeutics that spatially match the substrate and are less likely to elicit resistance mutations.
		+
		+	Structural insights into the substrate specificity of the endonuclease activity of the influenza virus cap-snatching mechanism.,Kumar G, Cuypers M, Webby RR, Webb TR, White SW Nucleic Acids Res. 2021 Jan 19. pii: 6104438. doi: 10.1093/nar/gkaa1294. PMID:33469660<ref>PMID:33469660</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 6w7a" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Influenza A virus]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Z-disk~~]]	+	[[Category: Synthetic construct]]
		+	[[Category: Cuypers MG]]
		+	[[Category: Kumar G]]
		+	[[Category: Webb T]]
		+	[[Category: White SW]]

OCA at 11:07, 3 February 2021

OCA — Wed, 03 Feb 2021 11:07:15 GMT

←Older revision		Revision as of 11:07, 3 February 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 6w7a ~~is ON HOLD until Mar 18 2022~~	+	====
-		+	<StructureSection load='6w7a' size='340' side='right'caption='[[6w7a]]' scene=''>
-	~~Authors~~: ~~Cuypers, M~~.G.~~, Kumar, G~~.~~, Webb, T~~.~~, White, S~~.W.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id= OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol= FirstGlance]. <br>
-	~~Description~~: ~~The crystal structure of the 2009~~/~~H1N1~~/~~California PA endonuclease mutant E119D bound to DNA oligomer TAGCAT (uncleaved~~, ~~5mM overnight DNA soak)~~	+	</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=6w7a FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6w7a OCA], [https://pdbe.org/6w7a PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6w7a RCSB], [https://www.ebi.ac.uk/pdbsum/6w7a PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6w7a ProSAT]</span></td></tr>
-	[~~[Category~~: ~~Unreleased Structures~~]]	+	</table>
-	[~~[Category~~: ~~White~~, S.W]]	+	__TOC__
-	[~~[Category~~: ~~Kumar~~, G]]	+	</StructureSection>
-	[[Category: ~~Webb, T~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Cuypers, M.G~~]]	+	[[Category: Z-disk]]

OCA at 05:09, 29 April 2020

OCA — Wed, 29 Apr 2020 05:09:27 GMT

←Older revision		Revision as of 05:09, 29 April 2020
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6w7a is ON HOLD	+	The entry 6w7a is ON HOLD until Mar 18 2022

	Authors: Cuypers, M.G., Kumar, G., Webb, T., White, S.W.		Authors: Cuypers, M.G., Kumar, G., Webb, T., White, S.W.

OCA: Protected "6w7a" [edit=sysop:move=sysop]

OCA — Fri, 27 Mar 2020 08:28:14 GMT

Protected "6w7a" [edit=sysop:move=sysop]

←Older revision

Revision as of 08:28, 27 March 2020

OCA: New page: '''Unreleased structure''' The entry 6w7a is ON HOLD Authors: Cuypers, M.G., Kumar, G., Webb, T., White, S.W. Description: The crystal structure of the 2009/H1N1/California PA endonucl...

OCA — Fri, 27 Mar 2020 08:28:13 GMT

New page: '''Unreleased structure''' The entry 6w7a is ON HOLD Authors: Cuypers, M.G., Kumar, G., Webb, T., White, S.W. Description: The crystal structure of the 2009/H1N1/California PA endonucl...

New page

'''Unreleased structure'''

The entry 6w7a is ON HOLD

Authors: Cuypers, M.G., Kumar, G., Webb, T., White, S.W.

Description: The crystal structure of the 2009/H1N1/California PA endonuclease mutant E119D bound to DNA oligomer TAGCAT (uncleaved, 5mM overnight DNA soak)
[[Category: Unreleased Structures]]
[[Category: White, S.W]]
[[Category: Kumar, G]]
[[Category: Webb, T]]
[[Category: Cuypers, M.G]]