5tjw - Revision history

OCA at 13:03, 4 October 2023

OCA — Wed, 04 Oct 2023 13:03:56 GMT

←Older revision		Revision as of 13:03, 4 October 2023
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	<StructureSection load='5tjw' size='340' side='right'caption='[[5tjw]], [[Resolution\|resolution]] 3.23Å' scene=''>		<StructureSection load='5tjw' size='340' side='right'caption='[[5tjw]], [[Resolution\|resolution]] 3.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5tjw]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TJW OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5TJW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5tjw]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Influenza_A_virus_(A/WSN/1933(H1N1)) Influenza A virus (A/WSN/1933(H1N1))] and [https://en.wikipedia.org/wiki/Vicugna_pacos Vicugna pacos]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TJW OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5TJW FirstGlance]. <br>
-	</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=5tjw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tjw OCA], [~~http~~://pdbe.org/5tjw PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5tjw RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5tjw PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5tjw ProSAT]</span></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]] 3.231Å</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=5tjw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tjw OCA], [https://pdbe.org/5tjw PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5tjw RCSB], [https://www.ebi.ac.uk/pdbsum/5tjw PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5tjw ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/~~B4URF1_9INFA B4URF1_9INFA]~~] Encapsidates the negative strand viral RNA, protecting it from nucleases. The encapsidated genomic RNA is termed the ribonucleoprotein (RNP) and serves as template for transcription and replication. The RNP needs to be localized in the nucleus to start an infectious cycle, but is too large to diffuse through the nuclear pore complex. NP comprises at least 2 nuclear localization signals and is responsible of the active RNP import into the nucleus through the cellular importin alpha/beta pathway. Later in the infection, nucleus export of RNP are mediated through viral proteins NEP interacting with M1 which binds nucleoproteins. It is possible that the nucleoprotein binds directly exportin-1 (XPO1) and plays an active role in RNP nuclear export. M1 interaction with RNP seems to hide nucleoprotein's nuclear localization signals. Soon after a virion infects a new cell, M1 dissociates from the RNP under acidification of the virion driven by M2 protein. Dissociation of M1 from RNP unmask nucleoprotein's nuclear localization signals, targeting the RNP to the nucleus.[SAAS:~~SAAS00107710~~]	+	[https://www.uniprot.org/uniprot/Q1K9H2_I33A0 Q1K9H2_I33A0] Encapsidates the negative strand viral RNA, protecting it from nucleases. The encapsidated genomic RNA is termed the ribonucleoprotein (RNP) and serves as template for transcription and replication. The RNP needs to be localized in the nucleus to start an infectious cycle, but is too large to diffuse through the nuclear pore complex. NP comprises at least 2 nuclear localization signals and is responsible of the active RNP import into the nucleus through the cellular importin alpha/beta pathway. Later in the infection, nucleus export of RNP are mediated through viral proteins NEP interacting with M1 which binds nucleoproteins. It is possible that the nucleoprotein binds directly exportin-1 (XPO1) and plays an active role in RNP nuclear export. M1 interaction with RNP seems to hide nucleoprotein's nuclear localization signals. Soon after a virion infects a new cell, M1 dissociates from the RNP under acidification of the virion driven by M2 protein. Dissociation of M1 from RNP unmask nucleoprotein's nuclear localization signals, targeting the RNP to the nucleus (By similarity).[SAAS:SAAS002141_004_603280]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~Hanke, L~~]]	+	[[Category: Vicugna pacos]]
-	[[Category: ~~Knockenhauer, K E]]~~	+	[[Category: Hanke L]]
-	~~[[Category: Ploegh, H~~ L]]	+	[[Category: Knockenhauer KE]]
-	[[Category: ~~Schwartz, T U~~]]	+	[[Category: Ploegh HL]]
-	[[Category: ~~Influenza~~]]	+	[[Category: Schwartz TU]]
-	[[Category: ~~Inhibitory]]~~	+
-	~~[[Category: Nucleoprotein]]~~	+
-	~~[[Category: Vhh]]~~	+
-	~~[[Category: Viral protein-immune system complex~~]]	+

OCA at 12:12, 23 September 2020

OCA — Wed, 23 Sep 2020 12:12:18 GMT

←Older revision		Revision as of 12:12, 23 September 2020
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	==Influenza A virus Nucleoprotein in Complex with Inhibitory Nanobody==		==Influenza A virus Nucleoprotein in Complex with Inhibitory Nanobody==
-	<StructureSection load='5tjw' size='340' side='right' caption='[[5tjw]], [[Resolution\|resolution]] 3.23Å' scene=''>	+	<StructureSection load='5tjw' size='340' side='right'caption='[[5tjw]], [[Resolution\|resolution]] 3.23Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5tjw]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TJW OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5TJW FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5tjw]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TJW OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5TJW FirstGlance]. <br>
-	</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=5tjw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tjw OCA], [http://pdbe.org/5tjw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tjw RCSB], [http://www.ebi.ac.uk/pdbsum/5tjw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tjw ProSAT]</span></td></tr>	+	</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=5tjw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tjw OCA], [http://pdbe.org/5tjw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tjw RCSB], [http://www.ebi.ac.uk/pdbsum/5tjw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tjw ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
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	</div>		</div>
	<div class="pdbe-citations 5tjw" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5tjw" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Antibody 3D structures\|Antibody 3D structures]]
		+	*[[Nucleoprotein 3D structures\|Nucleoprotein 3D structures]]
		+	*[[3D structures of non-human antibody\|3D structures of non-human antibody]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Large Structures]]
	[[Category: Hanke, L]]		[[Category: Hanke, L]]
	[[Category: Knockenhauer, K E]]		[[Category: Knockenhauer, K E]]

OCA at 09:40, 4 January 2017

OCA — Wed, 04 Jan 2017 09:40:17 GMT

←Older revision		Revision as of 09:40, 4 January 2017
Line 8:		Line 8:
	== Function ==		== Function ==
	[[http://www.uniprot.org/uniprot/B4URF1_9INFA B4URF1_9INFA]] Encapsidates the negative strand viral RNA, protecting it from nucleases. The encapsidated genomic RNA is termed the ribonucleoprotein (RNP) and serves as template for transcription and replication. The RNP needs to be localized in the nucleus to start an infectious cycle, but is too large to diffuse through the nuclear pore complex. NP comprises at least 2 nuclear localization signals and is responsible of the active RNP import into the nucleus through the cellular importin alpha/beta pathway. Later in the infection, nucleus export of RNP are mediated through viral proteins NEP interacting with M1 which binds nucleoproteins. It is possible that the nucleoprotein binds directly exportin-1 (XPO1) and plays an active role in RNP nuclear export. M1 interaction with RNP seems to hide nucleoprotein's nuclear localization signals. Soon after a virion infects a new cell, M1 dissociates from the RNP under acidification of the virion driven by M2 protein. Dissociation of M1 from RNP unmask nucleoprotein's nuclear localization signals, targeting the RNP to the nucleus.[SAAS:SAAS00107710]		[[http://www.uniprot.org/uniprot/B4URF1_9INFA B4URF1_9INFA]] Encapsidates the negative strand viral RNA, protecting it from nucleases. The encapsidated genomic RNA is termed the ribonucleoprotein (RNP) and serves as template for transcription and replication. The RNP needs to be localized in the nucleus to start an infectious cycle, but is too large to diffuse through the nuclear pore complex. NP comprises at least 2 nuclear localization signals and is responsible of the active RNP import into the nucleus through the cellular importin alpha/beta pathway. Later in the infection, nucleus export of RNP are mediated through viral proteins NEP interacting with M1 which binds nucleoproteins. It is possible that the nucleoprotein binds directly exportin-1 (XPO1) and plays an active role in RNP nuclear export. M1 interaction with RNP seems to hide nucleoprotein's nuclear localization signals. Soon after a virion infects a new cell, M1 dissociates from the RNP under acidification of the virion driven by M2 protein. Dissociation of M1 from RNP unmask nucleoprotein's nuclear localization signals, targeting the RNP to the nucleus.[SAAS:SAAS00107710]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Alpaca-derived single-domain antibody fragments (VHHs) that target the influenza A virus nucleoprotein (NP) can protect cells from infection when expressed in the cytosol. We found that one such VHH, alphaNP-VHH1, exhibits antiviral activity similar to that of Mx proteins by blocking nuclear import of incoming viral ribonucleoproteins (vRNPs) and viral transcription and replication in the nucleus. We determined a 3.2-A crystal structure of alphaNP-VHH1 in complex with influenza A virus NP. The VHH binds to a nonconserved region on the body domain of NP, which has been associated with binding to host factors and serves as a determinant of host range. Several of the NP/VHH interface residues determine sensitivity of NP to antiviral Mx GTPases. The structure of the NP/alphaNP-VHH1 complex affords a plausible explanation for the inhibitory properties of the VHH and suggests a rationale for the antiviral properties of Mx proteins. Such knowledge can be leveraged for much-needed novel antiviral strategies. IMPORTANCE: Influenza virus strains can rapidly escape from protection afforded by seasonal vaccines or acquire resistance to available drugs. Additional ways to interfere with the virus life cycle are therefore urgently needed. The influenza virus nucleoprotein is one promising target for antiviral interventions. We have previously isolated alpaca-derived single-domain antibody fragments (VHHs) that protect cells from influenza virus infection if expressed intracellularly. We show here that one such VHH exhibits antiviral activities similar to those of proteins of the cellular antiviral defense (Mx proteins). We determined the three-dimensional structure of this VHH in complex with the influenza virus nucleoprotein and identified the interaction site, which overlaps regions that determine sensitivity of the virus to Mx proteins. Our data define a new vulnerability of influenza virus, help us to better understand the cellular antiviral mechanisms, and provide a well-characterized tool to further study them.
		+
		+	The Antiviral Mechanism of an Influenza A Virus Nucleoprotein-Specific Single-Domain Antibody Fragment.,Hanke L, Knockenhauer KE, Brewer RC, van Diest E, Schmidt FI, Schwartz TU, Ploegh HL MBio. 2016 Dec 13;7(6). pii: e01569-16. doi: 10.1128/mBio.01569-16. PMID:27965447<ref>PMID:27965447</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5tjw" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 21:46, 22 December 2016

OCA — Thu, 22 Dec 2016 21:46:48 GMT

←Older revision		Revision as of 21:46, 22 December 2016
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5tjw is ~~ON HOLD until Paper Publication~~	+	==Influenza A virus Nucleoprotein in Complex with Inhibitory Nanobody==
-		+	<StructureSection load='5tjw' size='340' side='right' caption='[[5tjw]], [[Resolution\|resolution]] 3.23Å' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5tjw]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5TJW OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5TJW FirstGlance]. <br>
-	~~Description~~:	+	</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=5tjw FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5tjw OCA], [http://pdbe.org/5tjw PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5tjw RCSB], [http://www.ebi.ac.uk/pdbsum/5tjw PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5tjw ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/B4URF1_9INFA B4URF1_9INFA]] Encapsidates the negative strand viral RNA, protecting it from nucleases. The encapsidated genomic RNA is termed the ribonucleoprotein (RNP) and serves as template for transcription and replication. The RNP needs to be localized in the nucleus to start an infectious cycle, but is too large to diffuse through the nuclear pore complex. NP comprises at least 2 nuclear localization signals and is responsible of the active RNP import into the nucleus through the cellular importin alpha/beta pathway. Later in the infection, nucleus export of RNP are mediated through viral proteins NEP interacting with M1 which binds nucleoproteins. It is possible that the nucleoprotein binds directly exportin-1 (XPO1) and plays an active role in RNP nuclear export. M1 interaction with RNP seems to hide nucleoprotein's nuclear localization signals. Soon after a virion infects a new cell, M1 dissociates from the RNP under acidification of the virion driven by M2 protein. Dissociation of M1 from RNP unmask nucleoprotein's nuclear localization signals, targeting the RNP to the nucleus.[SAAS:SAAS00107710]
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Hanke, L]]
		+	[[Category: Knockenhauer, K E]]
		+	[[Category: Ploegh, H L]]
		+	[[Category: Schwartz, T U]]
		+	[[Category: Influenza]]
		+	[[Category: Inhibitory]]
		+	[[Category: Nucleoprotein]]
		+	[[Category: Vhh]]
		+	[[Category: Viral protein-immune system complex]]

OCA at 17:34, 9 December 2016

OCA — Fri, 09 Dec 2016 17:34:49 GMT

←Older revision		Revision as of 17:34, 9 December 2016
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5tjw is ON HOLD	+	The entry 5tjw is ON HOLD until Paper Publication

	Authors:		Authors:

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

OCA — Wed, 19 Oct 2016 15:56:28 GMT

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

←Older revision

Revision as of 15:56, 19 October 2016

OCA: New page: '''Unreleased structure''' The entry 5tjw is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 19 Oct 2016 15:56:26 GMT

New page: '''Unreleased structure''' The entry 5tjw is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 5tjw is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]