7m12 - Revision history

OCA at 15:01, 6 March 2024

OCA — Wed, 06 Mar 2024 15:01:13 GMT

←Older revision		Revision as of 15:01, 6 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7m12]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trichomonas_vaginalis_virus_2 Trichomonas vaginalis virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7M12 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7M12 FirstGlance]. <br>		<table><tr><td colspan='2'>[[7m12]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trichomonas_vaginalis_virus_2 Trichomonas vaginalis virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7M12 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7M12 FirstGlance]. <br>
-	</td></tr><tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~><div style~~=~~'overflow: auto; max-height: 3em;'~~>[[~~7lwy~~\|~~7lwy~~]]~~</div>~~</td></tr>	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution\|Resolution]] 4Å</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=7m12 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7m12 OCA], [https://pdbe.org/7m12 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7m12 RCSB], [https://www.ebi.ac.uk/pdbsum/7m12 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7m12 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=7m12 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7m12 OCA], [https://pdbe.org/7m12 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7m12 RCSB], [https://www.ebi.ac.uk/pdbsum/7m12 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7m12 ProSAT]</span></td></tr>
	</table>		</table>
-	~~<div style~~=~~"background-color:#fffaf0;">~~	+	== Function ==
-	=~~= Publication Abstract from PubMed~~ ==	+	[https://www.uniprot.org/uniprot/Q9JE95_9VIRU Q9JE95_9VIRU]
-	Trichomonas vaginalis, the causative pathogen for the most common nonviral sexually transmitted infection worldwide, is itself frequently infected with one or more of the four types of small double-stranded RNA (dsRNA) Trichomonas vaginalis viruses (TVV1 to 4, genus Trichomonasvirus, family Totiviridae). Each TVV encloses a nonsegmented genome within a single-layered capsid and replicates entirely intracellularly, like many dsRNA viruses, and unlike those in the Reoviridae family. Here, we have determined the structure of TVV2 by cryo-electron microscopy (cryoEM) at 3.6 A resolution and derived an atomic model of its capsid. TVV2 has an icosahedral, T = 2*, capsid comprised of 60 copies of the icosahedral asymmetric unit (a dimer of the two capsid shell protein [CSP] conformers, CSP-A and CSP-B), typical of icosahedral dsRNA virus capsids. However, unlike the robust CSP-interlocking interactions such as the use of auxiliary "clamping" proteins among Reoviridae, only lateral CSP interactions are observed in TVV2, consistent with an assembly strategy optimized for TVVs' intracellular-only replication cycles within their protozoan host. The atomic model reveals both a mostly negatively charged capsid interior, which is conducive to movement of the loosely packed genome, and channels at the 5-fold vertices, which we suggest as routes of mRNA release during transcription. Structural comparison of TVV2 to the Saccharomyces cerevisiae L-A virus reveals a conserved helix-rich fold within the CSP and putative guanylyltransferase domain along the capsid exterior, suggesting conserved mRNA maintenance strategies among Totiviridae This first atomic structure of a TVV provides a framework to guide future biochemical investigations into the interplay between Trichomonas vaginalis and its viruses.IMPORTANCE Trichomonas vaginalis viruses (TVVs) are double-stranded RNA (dsRNA) viruses that cohabitate in Trichomonas vaginalis, the causative pathogen of trichomoniasis, the most common nonviral sexually transmitted disease worldwide. Featuring an unsegmented dsRNA genome encoding a single capsid shell protein (CSP), TVVs contrast with multisegmented dsRNA viruses, such as the diarrhea-causing rotavirus, whose larger genome is split into 10 dsRNA segments encoding 5 unique capsid proteins. To determine how TVVs incorporate the requisite functionalities for viral replication into their limited proteome, we derived the atomic model of TVV2, a first for TVVs. Our results reveal the intersubunit interactions driving CSP association for capsid assembly and the properties that govern organization and maintenance of the viral genome. Structural comparison between TVV2 capsids and those of distantly related dsRNA viruses indicates conserved strategies of nascent RNA release and a putative viral guanylyltransferase domain implicated in the cytoplasmic maintenance of viral messenger and genomic RNA.	+
-		+
-	~~Atomic Structure of the Trichomonas vaginalis Double-Stranded RNA Virus 2.,Stevens A, Muratore K, Cui Y, Johnson PJ, Zhou ZH mBio. 2021 Mar 30;12(2). pii~~: ~~mBio.02924-20. doi: 10.1128~~/~~mBio.02924-20. PMID:33785622<ref>PMID:33785622</ref>~~	+
-		+
-	~~From MEDLINE®~~/~~PubMed®, a database of the U~~.S. ~~National Library of Medicine.<br>~~	+
-	</~~div>~~	+
-	~~<div class="pdbe-citations 7m12" style="background-color:#fffaf0;"><~~/~~div>~~	+
-	~~== References ==~~	+
-	~~<references/>~~	+
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: Trichomonas vaginalis virus 2]]		[[Category: Trichomonas vaginalis virus 2]]
-	[[Category: Cui~~, Y X~~]]	+	[[Category: Cui YX]]
-	[[Category: Johnson~~, P J~~]]	+	[[Category: Johnson PJ]]
-	[[Category: Muratore~~, K A~~]]	+	[[Category: Muratore KA]]
-	[[Category: Stevens~~, A W~~]]	+	[[Category: Stevens AW]]
-	[[Category: Zhou~~, H Z]]~~	+	[[Category: Zhou HZ]]
-	~~[[Category: Capsid]]~~	+
-	~~[[Category: Viral protein~~]]	+

OCA at 07:04, 14 April 2021

OCA — Wed, 14 Apr 2021 07:04:15 GMT

←Older revision		Revision as of 07:04, 14 April 2021
Line 1:		Line 1:

	==TVV2 capsid protein==		==TVV2 capsid protein==
-	<StructureSection load='7m12' size='340' side='right'caption='[[7m12]]' scene=''>	+	<StructureSection load='7m12' size='340' side='right'caption='[[7m12]], [[Resolution\|resolution]] 4.00Å' 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=7M12 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7M12 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7m12]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Trichomonas_vaginalis_virus_2 Trichomonas vaginalis virus 2]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7M12 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7M12 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=7m12 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7m12 OCA], [https://pdbe.org/7m12 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7m12 RCSB], [https://www.ebi.ac.uk/pdbsum/7m12 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7m12 ProSAT]</span></td></tr>	+	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat"><div style='overflow: auto; max-height: 3em;'>[[7lwy\|7lwy]]</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=7m12 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7m12 OCA], [https://pdbe.org/7m12 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7m12 RCSB], [https://www.ebi.ac.uk/pdbsum/7m12 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7m12 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Trichomonas vaginalis, the causative pathogen for the most common nonviral sexually transmitted infection worldwide, is itself frequently infected with one or more of the four types of small double-stranded RNA (dsRNA) Trichomonas vaginalis viruses (TVV1 to 4, genus Trichomonasvirus, family Totiviridae). Each TVV encloses a nonsegmented genome within a single-layered capsid and replicates entirely intracellularly, like many dsRNA viruses, and unlike those in the Reoviridae family. Here, we have determined the structure of TVV2 by cryo-electron microscopy (cryoEM) at 3.6 A resolution and derived an atomic model of its capsid. TVV2 has an icosahedral, T = 2*, capsid comprised of 60 copies of the icosahedral asymmetric unit (a dimer of the two capsid shell protein [CSP] conformers, CSP-A and CSP-B), typical of icosahedral dsRNA virus capsids. However, unlike the robust CSP-interlocking interactions such as the use of auxiliary "clamping" proteins among Reoviridae, only lateral CSP interactions are observed in TVV2, consistent with an assembly strategy optimized for TVVs' intracellular-only replication cycles within their protozoan host. The atomic model reveals both a mostly negatively charged capsid interior, which is conducive to movement of the loosely packed genome, and channels at the 5-fold vertices, which we suggest as routes of mRNA release during transcription. Structural comparison of TVV2 to the Saccharomyces cerevisiae L-A virus reveals a conserved helix-rich fold within the CSP and putative guanylyltransferase domain along the capsid exterior, suggesting conserved mRNA maintenance strategies among Totiviridae This first atomic structure of a TVV provides a framework to guide future biochemical investigations into the interplay between Trichomonas vaginalis and its viruses.IMPORTANCE Trichomonas vaginalis viruses (TVVs) are double-stranded RNA (dsRNA) viruses that cohabitate in Trichomonas vaginalis, the causative pathogen of trichomoniasis, the most common nonviral sexually transmitted disease worldwide. Featuring an unsegmented dsRNA genome encoding a single capsid shell protein (CSP), TVVs contrast with multisegmented dsRNA viruses, such as the diarrhea-causing rotavirus, whose larger genome is split into 10 dsRNA segments encoding 5 unique capsid proteins. To determine how TVVs incorporate the requisite functionalities for viral replication into their limited proteome, we derived the atomic model of TVV2, a first for TVVs. Our results reveal the intersubunit interactions driving CSP association for capsid assembly and the properties that govern organization and maintenance of the viral genome. Structural comparison between TVV2 capsids and those of distantly related dsRNA viruses indicates conserved strategies of nascent RNA release and a putative viral guanylyltransferase domain implicated in the cytoplasmic maintenance of viral messenger and genomic RNA.
		+
		+	Atomic Structure of the Trichomonas vaginalis Double-Stranded RNA Virus 2.,Stevens A, Muratore K, Cui Y, Johnson PJ, Zhou ZH mBio. 2021 Mar 30;12(2). pii: mBio.02924-20. doi: 10.1128/mBio.02924-20. PMID:33785622<ref>PMID:33785622</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7m12" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Cui YX]]	+	[[Category: Trichomonas vaginalis virus 2]]
-	[[Category: Johnson PJ]]	+	[[Category: Cui, Y X]]
-	[[Category: Muratore KA]]	+	[[Category: Johnson, P J]]
-	[[Category: Stevens AW]]	+	[[Category: Muratore, K A]]
-	[[Category: Zhou HZ]]	+	[[Category: Stevens, A W]]
		+	[[Category: Zhou, H Z]]
		+	[[Category: Capsid]]
		+	[[Category: Viral protein]]

OCA at 06:53, 7 April 2021

OCA — Wed, 07 Apr 2021 06:53:57 GMT

←Older revision		Revision as of 06:53, 7 April 2021
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 7m12 is ~~ON HOLD~~	+	==TVV2 capsid protein==
-		+	<StructureSection load='7m12' size='340' side='right'caption='[[7m12]]' scene=''>
-	~~Authors~~:	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7M12 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7M12 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=7m12 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7m12 OCA], [https://pdbe.org/7m12 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7m12 RCSB], [https://www.ebi.ac.uk/pdbsum/7m12 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7m12 ProSAT]</span></td></tr>
-	[[Category: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Large Structures]]
		+	[[Category: Cui YX]]
		+	[[Category: Johnson PJ]]
		+	[[Category: Muratore KA]]
		+	[[Category: Stevens AW]]
		+	[[Category: Zhou HZ]]

OCA: Protected "7m12" [edit=sysop:move=sysop]

OCA — Wed, 17 Mar 2021 05:29:18 GMT

Protected "7m12" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:29, 17 March 2021

OCA: New page: '''Unreleased structure''' The entry 7m12 is ON HOLD Authors: Description: Category: Unreleased Structures

OCA — Wed, 17 Mar 2021 05:29:16 GMT

New page: '''Unreleased structure''' The entry 7m12 is ON HOLD Authors: Description: Category: Unreleased Structures

New page

'''Unreleased structure'''

The entry 7m12 is ON HOLD

Authors:

Description:
[[Category: Unreleased Structures]]