7yzv - Revision history

OCA at 08:01, 7 February 2024

OCA — Wed, 07 Feb 2024 08:01:16 GMT

←Older revision		Revision as of 08:01, 7 February 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[7yzv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ryegrass_mottle_virus Ryegrass mottle virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YZV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YZV FirstGlance]. <br>		<table><tr><td colspan='2'>[[7yzv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ryegrass_mottle_virus Ryegrass mottle virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YZV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YZV 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=7yzv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yzv OCA], [https://pdbe.org/7yzv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yzv RCSB], [https://www.ebi.ac.uk/pdbsum/7yzv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yzv 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]] 1.6Å</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=7yzv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yzv OCA], [https://pdbe.org/7yzv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yzv RCSB], [https://www.ebi.ac.uk/pdbsum/7yzv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yzv ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/A0MCW0_9VIRU A0MCW0_9VIRU]		[https://www.uniprot.org/uniprot/A0MCW0_9VIRU A0MCW0_9VIRU]
-	<div style="background-color:#fffaf0;">
-	== Publication Abstract from PubMed ==
-	Sobemoviruses encode serine-like 3C proteases (Pro) that participate in the processing and maturation of other virus-encoded proteins. Its cis and trans activity is mediated by the naturally unfolded virus-genome-linked protein (VPg). Nuclear magnetic resonance studies show a Pro-VPg complex interaction and VPg tertiary structure; however, information regarding structural changes of the Pro-VPg complex during interaction is lacking. Here, we solved a full Pro-VPg 3D structure of ryegrass mottle virus (RGMoV) that demonstrates the structural changes in three different conformations due to VPg interaction with Pro. We identified a unique site of VPg interaction with Pro that was not observed in other sobemoviruses, and observed different conformations of the Pro beta2 barrel. This is the first report of a full plant Pro crystal structure with its VPg cofactor. We also confirmed the existence of an unusual previously unmapped cleavage site for sobemovirus Pro in the transmembrane domain: E/A. We demonstrated that RGMoV Pro in cis activity is not regulated by VPg and that in trans, VPg can also mediate Pro in free form. Additionally, we observed Ca(2+) and Zn(2+) inhibitory effects on the Pro cleavage activity.
-
-	VPg Impact on Ryegrass Mottle Virus Serine-like 3C Protease Proteolysis and Structure.,Kalnins G, Ludviga R, Kalnciema I, Resevica G, Zeltina V, Bogans J, Tars K, Zeltins A, Balke I Int J Mol Sci. 2023 Mar 10;24(6):5347. doi: 10.3390/ijms24065347. PMID:36982419<ref>PMID:36982419</ref>
-
-	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	</div>
-	<div class="pdbe-citations 7yzv" style="background-color:#fffaf0;"></div>
-	== References ==
-	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 06:38, 7 April 2023

OCA — Fri, 07 Apr 2023 06:38:40 GMT

←Older revision		Revision as of 06:38, 7 April 2023
Line 1:		Line 1:

	==Ryegrass mottle virus serine protease domain S159A mutant==		==Ryegrass mottle virus serine protease domain S159A mutant==
-	<StructureSection load='7yzv' size='340' side='right'caption='[[7yzv]]' scene=''>	+	<StructureSection load='7yzv' size='340' side='right'caption='[[7yzv]], [[Resolution\|resolution]] 1.60Å' 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=7YZV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YZV FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[7yzv]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ryegrass_mottle_virus Ryegrass mottle virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YZV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YZV 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=7yzv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yzv OCA], [https://pdbe.org/7yzv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yzv RCSB], [https://www.ebi.ac.uk/pdbsum/7yzv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yzv ProSAT]</span></td></tr>		</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=7yzv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yzv OCA], [https://pdbe.org/7yzv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yzv RCSB], [https://www.ebi.ac.uk/pdbsum/7yzv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yzv ProSAT]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0MCW0_9VIRU A0MCW0_9VIRU]
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Sobemoviruses encode serine-like 3C proteases (Pro) that participate in the processing and maturation of other virus-encoded proteins. Its cis and trans activity is mediated by the naturally unfolded virus-genome-linked protein (VPg). Nuclear magnetic resonance studies show a Pro-VPg complex interaction and VPg tertiary structure; however, information regarding structural changes of the Pro-VPg complex during interaction is lacking. Here, we solved a full Pro-VPg 3D structure of ryegrass mottle virus (RGMoV) that demonstrates the structural changes in three different conformations due to VPg interaction with Pro. We identified a unique site of VPg interaction with Pro that was not observed in other sobemoviruses, and observed different conformations of the Pro beta2 barrel. This is the first report of a full plant Pro crystal structure with its VPg cofactor. We also confirmed the existence of an unusual previously unmapped cleavage site for sobemovirus Pro in the transmembrane domain: E/A. We demonstrated that RGMoV Pro in cis activity is not regulated by VPg and that in trans, VPg can also mediate Pro in free form. Additionally, we observed Ca(2+) and Zn(2+) inhibitory effects on the Pro cleavage activity.
		+
		+	VPg Impact on Ryegrass Mottle Virus Serine-like 3C Protease Proteolysis and Structure.,Kalnins G, Ludviga R, Kalnciema I, Resevica G, Zeltina V, Bogans J, Tars K, Zeltins A, Balke I Int J Mol Sci. 2023 Mar 10;24(6):5347. doi: 10.3390/ijms24065347. PMID:36982419<ref>PMID:36982419</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 7yzv" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Large Structures]]		[[Category: Large Structures]]
		+	[[Category: Ryegrass mottle virus]]
	[[Category: Kalnins G]]		[[Category: Kalnins G]]

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

OCA — Wed, 02 Mar 2022 06:24:19 GMT

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

←Older revision

Revision as of 06:24, 2 March 2022

OCA: New page: ==Ryegrass mottle virus serine protease domain S159A mutant== == Structural highlights ==

OCA — Wed, 02 Mar 2022 06:24:18 GMT

New page: ==Ryegrass mottle virus serine protease domain S159A mutant== <StructureSection load='7yzv' size='340' side='right'caption='7yzv' scene=''> == Structural highlights == <table><tr><td ...

New page

==Ryegrass mottle virus serine protease domain S159A mutant==
<StructureSection load='7yzv' size='340' side='right'caption='[[7yzv]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=7YZV OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=7YZV 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=7yzv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=7yzv OCA], [https://pdbe.org/7yzv PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=7yzv RCSB], [https://www.ebi.ac.uk/pdbsum/7yzv PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=7yzv ProSAT]</span></td></tr>
</table>
TOC
</StructureSection>
[[Category: Large Structures]]
[[Category: Kalnins G]]