7v3c - Revision history

OCA at 17:19, 29 November 2023

OCA — Wed, 29 Nov 2023 17:19:40 GMT

←Older revision		Revision as of 17:19, 29 November 2023
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	<StructureSection load='7v3c' size='340' side='right'caption='[[7v3c]], [[Resolution\|resolution]] 1.90Å' scene=''>		<StructureSection load='7v3c' size='340' side='right'caption='[[7v3c]], [[Resolution\|resolution]] 1.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[7v3c]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V3C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V3C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7v3c]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Lassa_virus_Josiah Lassa virus Josiah]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V3C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V3C FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HGB:4-(HYDROXYMERCURY)BENZOIC+ACID'>HGB</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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]] 1.9Å</td></tr>
-	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[7v37\|7v37]], [[7v38\|7v38]], [[7v39\|7v39]], [[7v3a\|7v3a]], [[7v3b\|7v3b]]</div></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=HGB:4-(HYDROXYMERCURY)BENZOIC+ACID'>HGB</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</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=7v3c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v3c OCA], [https://pdbe.org/7v3c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v3c RCSB], [https://www.ebi.ac.uk/pdbsum/7v3c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v3c 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=7v3c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v3c OCA], [https://pdbe.org/7v3c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v3c RCSB], [https://www.ebi.ac.uk/pdbsum/7v3c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v3c ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/NCAP_LASSJ NCAP_LASSJ]] Encapsidates the genome, protecting it from nucleases. The encapsidated genomic RNA is termed the nucleocapsid (NC). Serves as template for viral transcription and replication. The increased presence of protein N in host cell does not seem to trigger the switch from transcription to replication as observed in other negative strain RNA viruses. Disables the host innate defense by interfering with beta interferon (IFN-beta) production. Strongly inhibits the nuclear translocation of IRF3, a protein involved in IFN activation pathway. Also inhibits the activation of IFN-beta and IRF3-dependent promoters (By similarity).	+	[https://www.uniprot.org/uniprot/NCAP_LASSJ NCAP_LASSJ] Encapsidates the genome, protecting it from nucleases. The encapsidated genomic RNA is termed the nucleocapsid (NC). Serves as template for viral transcription and replication. The increased presence of protein N in host cell does not seem to trigger the switch from transcription to replication as observed in other negative strain RNA viruses. Disables the host innate defense by interfering with beta interferon (IFN-beta) production. Strongly inhibits the nuclear translocation of IRF3, a protein involved in IFN activation pathway. Also inhibits the activation of IFN-beta and IRF3-dependent promoters (By similarity).
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</div>		</div>
	<div class="pdbe-citations 7v3c" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 7v3c" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Nucleoprotein 3D structures\|Nucleoprotein 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Hsiao, Y Y~~]]	+	[[Category: Lassa virus Josiah]]
-	[[Category: ~~Huang, K W~~]]	+	[[Category: Hsiao YY]]
-	[[Category: ~~Anti-viral drug]]~~	+	[[Category: Huang KW]]
-	~~[[Category: Deddh exonuclease]]~~	+
-	~~[[Category: Np exonuclease]]~~	+
-	~~[[Category: Pcmb]]~~	+
-	~~[[Category: Pcmp]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 11:12, 16 February 2022

OCA — Wed, 16 Feb 2022 11:12:29 GMT

←Older revision		Revision as of 11:12, 16 February 2022
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	==Crystal structure of NP exonuclease C409A-PCMB complex==		==Crystal structure of NP exonuclease C409A-PCMB complex==
-	<StructureSection load='7v3c' size='340' side='right'caption='[[7v3c]]' scene=''>	+	<StructureSection load='7v3c' size='340' side='right'caption='[[7v3c]], [[Resolution\|resolution]] 1.90Å' 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=7V3C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V3C FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7v3c]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V3C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V3C 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=7v3c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v3c OCA], [https://pdbe.org/7v3c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v3c RCSB], [https://www.ebi.ac.uk/pdbsum/7v3c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v3c 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=HGB:4-(HYDROXYMERCURY)BENZOIC+ACID'>HGB</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[7v37\|7v37]], [[7v38\|7v38]], [[7v39\|7v39]], [[7v3a\|7v3a]], [[7v3b\|7v3b]]</div></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=7v3c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v3c OCA], [https://pdbe.org/7v3c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v3c RCSB], [https://www.ebi.ac.uk/pdbsum/7v3c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v3c ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[https://www.uniprot.org/uniprot/NCAP_LASSJ NCAP_LASSJ]] Encapsidates the genome, protecting it from nucleases. The encapsidated genomic RNA is termed the nucleocapsid (NC). Serves as template for viral transcription and replication. The increased presence of protein N in host cell does not seem to trigger the switch from transcription to replication as observed in other negative strain RNA viruses. Disables the host innate defense by interfering with beta interferon (IFN-beta) production. Strongly inhibits the nuclear translocation of IRF3, a protein involved in IFN activation pathway. Also inhibits the activation of IFN-beta and IRF3-dependent promoters (By similarity).
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	For using targeted covalent inhibitors (TCIs) as anticancer and antiviral drugs, we establish that the model compounds PCMPS (p-chloromercuriphenyl sulfate) and PCMB (p-chloromercuribenzoate) are inhibitors of the DEDDh family of exonucleases. The underlying mechanism is analyzed by X-ray crystallography, activity/nucleic acid-binding assays, and all-atom molecular dynamics (MD) simulations. The first TCI-complexed structures of a DEDDh enzyme, the Lassa fever virus NP exonuclease (NPexo), are resolved to elucidate that the Cys409 binding site is away from the active site and the RNA-binding lid. The NPexo C409A structures indicate Cys461 as the alternative distal site for obstructing the equally active mutant. All-atom MD simulations of the wild type and mutant NPexos in explicit solvent uncover an allosteric inhibition mechanism that the local perturbation induced by PCMPS sulfonate propagates to impact the RNA-binding lid conformation. Binding assay studies confirm that PCMPS does affect the RNA binding of NPexo. The predicted relative potency between PCMPS and PCMB is also in line with experiments. The structural data and inhibition mechanism established in this work provide an important molecular basis for the drug development of TCIs.
		+
		+	Targeted Covalent Inhibitors Allosterically Deactivate the DEDDh Lassa Fever Virus NP Exonuclease from Alternative Distal Sites.,Huang KW, Chen JW, Hua TY, Chu YY, Chiu TY, Liu JY, Tu CI, Hsu KC, Kao YT, Chu JW, Hsiao YY JACS Au. 2021 Nov 16;1(12):2315-2327. doi: 10.1021/jacsau.1c00420. eCollection, 2021 Dec 27. PMID:34977900<ref>PMID:34977900</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7v3c" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Hsiao YY]]	+	[[Category: Hsiao, Y Y]]
-	[[Category: Huang KW]]	+	[[Category: Huang, K W]]
		+	[[Category: Anti-viral drug]]
		+	[[Category: Deddh exonuclease]]
		+	[[Category: Np exonuclease]]
		+	[[Category: Pcmb]]
		+	[[Category: Pcmp]]
		+	[[Category: Viral protein]]

OCA at 16:51, 15 December 2021

OCA — Wed, 15 Dec 2021 16:51:22 GMT

←Older revision		Revision as of 16:51, 15 December 2021
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-	'''Unreleased structure'''

-	~~The entry~~ 7v3c ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of NP exonuclease C409A-PCMB complex==
-		+	<StructureSection load='7v3c' size='340' side='right'caption='[[7v3c]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7V3C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7V3C FirstGlance]. <br>
-	~~Description~~:	+	</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=7v3c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7v3c OCA], [https://pdbe.org/7v3c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7v3c RCSB], [https://www.ebi.ac.uk/pdbsum/7v3c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7v3c ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased~~ Structures]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Hsiao YY]]
		+	[[Category: Huang KW]]

OCA at 08:22, 15 September 2021

OCA — Wed, 15 Sep 2021 08:22:59 GMT

←Older revision		Revision as of 08:22, 15 September 2021
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	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 7v3c is ON HOLD	+	The entry 7v3c is ON HOLD until Paper Publication

	Authors:		Authors:

OCA: Protected "7v3c" [edit=sysop:move=sysop]

OCA — Wed, 18 Aug 2021 05:15:01 GMT

Protected "7v3c" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:15, 18 August 2021

OCA: New page: '''Unreleased structure''' The entry 7v3c is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 18 Aug 2021 05:15:00 GMT

New page: '''Unreleased structure''' The entry 7v3c is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7v3c is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]