5vmo - Revision history

OCA at 13:51, 4 October 2023

2023-10-04T13:51:41Z

←Older revision		Revision as of 13:51, 4 October 2023
Line 1:		Line 1:

	==Crystal structure of grouper iridovirus GIV66:Bim complex==		==Crystal structure of grouper iridovirus GIV66:Bim complex==
-	<StructureSection load='5vmo' size='340' side='right' caption='[[5vmo]], [[Resolution\|resolution]] 1.70Å' scene=''>	+	<StructureSection load='5vmo' size='340' side='right'caption='[[5vmo]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vmo]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Grouper_iridovirus Grouper iridovirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VMO OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5VMO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vmo]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Danio_rerio Danio rerio] and [https://en.wikipedia.org/wiki/Grouper_iridovirus Grouper iridovirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VMO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5VMO FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat"~~><scene name~~=~~'pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene~~>, ~~<scene name='pdbligand=EDO:~~1~~,2-ETHANEDIOL'>EDO</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]] 1.7Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat">~~[[5vmn\|5vmn]]~~<~~/td~~></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	<~~tr id~~='~~gene'><td class~~=~~"sblockLbl"><b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">GIV66 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=127569 Grouper iridovirus])~~</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=5vmo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vmo OCA], [https://pdbe.org/5vmo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5vmo RCSB], [https://www.ebi.ac.uk/pdbsum/5vmo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5vmo ProSAT]</span></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=5vmo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vmo OCA], [~~http~~://pdbe.org/5vmo PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5vmo RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5vmo PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5vmo ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/Q5GAF0_9VIRU Q5GAF0_9VIRU]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 22:		Line 23:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Danio rerio]]
	[[Category: Grouper iridovirus]]		[[Category: Grouper iridovirus]]
-	[[Category: ~~Banjara, S~~]]	+	[[Category: Large Structures]]
-	[[Category: ~~Kvansakul, M~~]]	+	[[Category: Banjara S]]
-	[[Category: ~~Apoptosis]]~~	+	[[Category: Kvansakul M]]
-	~~[[Category: Bcl-2]]~~	+
-	~~[[Category: Grouper]]~~	+
-	~~[[Category: Iridovirus]]~~	+
-	~~[[Category: Viral protein-apoptosis complex~~]]	+

OCA at 06:53, 14 March 2018

2018-03-14T06:53:10Z

←Older revision		Revision as of 06:53, 14 March 2018
Line 3:		Line 3:
	<StructureSection load='5vmo' size='340' side='right' caption='[[5vmo]], [[Resolution\|resolution]] 1.70Å' scene=''>		<StructureSection load='5vmo' size='340' side='right' caption='[[5vmo]], [[Resolution\|resolution]] 1.70Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5vmo]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VMO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VMO FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5vmo]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Grouper_iridovirus Grouper iridovirus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VMO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VMO FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5vmn\|5vmn]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5vmn\|5vmn]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">GIV66 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=127569 Grouper iridovirus])</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=5vmo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vmo OCA], [http://pdbe.org/5vmo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vmo RCSB], [http://www.ebi.ac.uk/pdbsum/5vmo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vmo ProSAT]</span></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=5vmo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vmo OCA], [http://pdbe.org/5vmo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vmo RCSB], [http://www.ebi.ac.uk/pdbsum/5vmo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vmo ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Programmed cell death or apoptosis is a critical mechanism for the controlled removal of damaged or infected cells, and proteins of the BCL-2 family are important arbiters of this process. Viruses have been shown to encode functional and structural homologs of BCL-2 to counter premature host-cell apoptosis and ensure viral proliferation or survival. Grouper iridovirus (GIV) is a large DNA virus belonging to the Iridoviridae family and harbors GIV66, a putative BCL-2 like protein and mitochondrially localized apoptosis inhibitor. However, the molecular and structural bases of GIV66-mediated apoptosis inhibition is currently not understood. To gain insight into GIV66's mechanism of action, we systematically evaluated its ability to bind peptides spanning the BH3 domain of pro-apoptotic BCL-2 family members. Our results revealed that GIV66 harbors an unusually high level of specificity for pro-apoptotic BCL-2 and displays affinity only for BCL2-like 11 (BCL2L11 or BIM). Using crystal structures of both apo GIV66 and GIV66 bound to the BH3 domain from BIM, we unexpectedly found that GIV66 forms dimers via an interface that results in occluded access to the canonical BCL-2 ligand-binding groove, which breaks apart upon BIM binding. This observation suggests that GIV66 dimerization may affect GIV66's ability to bind host pro-death BCL-2 proteins, and enables highly targeted virus directed suppression of host apoptosis signalling. Our findings provide a mechanistic understanding for the potent antiapoptotic activity of GIV66 by identifying it as the first single-specificity, pro-survival BCL-2 protein, and identifying a pivotal role of BIM in GIV-mediated inhibition of apoptosis.
		+
		+	Grouper Iridovirus GIV66 is a Bcl-2 protein that inhibits apoptosis by exclusively sequestering Bim.,Banjara S, Mao J, Ryan TM, Caria S, Kvansakul M J Biol Chem. 2018 Feb 26. pii: RA117.000591. doi: 10.1074/jbc.RA117.000591. PMID:29483196<ref>PMID:29483196</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 5vmo" style="background-color:#fffaf0;"></div>
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Grouper iridovirus]]
	[[Category: Banjara, S]]		[[Category: Banjara, S]]
	[[Category: Kvansakul, M]]		[[Category: Kvansakul, M]]

OCA at 05:02, 8 March 2018

2018-03-08T05:02:25Z

←Older revision		Revision as of 05:02, 8 March 2018
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5vmo ~~is ON HOLD until Paper Publication~~	+	==Crystal structure of grouper iridovirus GIV66:Bim complex==
-		+	<StructureSection load='5vmo' size='340' side='right' caption='[[5vmo]], [[Resolution\|resolution]] 1.70Å' scene=''>
-	~~Authors~~: ~~Banjara, S~~., ~~Kvansakul~~, M.	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[5vmo]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VMO OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5VMO FirstGlance]. <br>
-	~~Description~~: ~~Crystal structure of grouper iridovirus GIV66~~:~~Bim complex~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5vmn\|5vmn]]</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=5vmo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vmo OCA], [http://pdbe.org/5vmo PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vmo RCSB], [http://www.ebi.ac.uk/pdbsum/5vmo PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vmo ProSAT]</span></td></tr>
		+	</table>
		+	__TOC__
		+	</StructureSection>
	[[Category: Banjara, S]]		[[Category: Banjara, S]]
	[[Category: Kvansakul, M]]		[[Category: Kvansakul, M]]
		+	[[Category: Apoptosis]]
		+	[[Category: Bcl-2]]
		+	[[Category: Grouper]]
		+	[[Category: Iridovirus]]
		+	[[Category: Viral protein-apoptosis complex]]

OCA at 14:07, 27 September 2017

2017-09-27T14:07:37Z

←Older revision		Revision as of 14:07, 27 September 2017
Line 7:		Line 7:
	Description: Crystal structure of grouper iridovirus GIV66:Bim complex		Description: Crystal structure of grouper iridovirus GIV66:Bim complex
	[[Category: Unreleased Structures]]		[[Category: Unreleased Structures]]
-	[[Category: Kvansakul, M]]
	[[Category: Banjara, S]]		[[Category: Banjara, S]]
		+	[[Category: Kvansakul, M]]

OCA at 11:11, 10 May 2017

2017-05-10T11:11:36Z

←Older revision		Revision as of 11:11, 10 May 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Banjara, S., Kvansakul, M.		Authors: Banjara, S., Kvansakul, M.

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

2017-05-04T11:29:25Z

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

←Older revision

Revision as of 11:29, 4 May 2017

OCA: New page: '''Unreleased structure''' The entry 5vmo is ON HOLD Authors: Banjara, S., Kvansakul, M. Description: Crystal structure of grouper iridovirus GIV66:Bim complex [[Category: Unreleased S...

2017-05-04T11:29:23Z

New page: '''Unreleased structure''' The entry 5vmo is ON HOLD Authors: Banjara, S., Kvansakul, M. Description: Crystal structure of grouper iridovirus GIV66:Bim complex [[Category: Unreleased S...

New page

'''Unreleased structure'''

The entry 5vmo is ON HOLD

Authors: Banjara, S., Kvansakul, M.

Description: Crystal structure of grouper iridovirus GIV66:Bim complex
[[Category: Unreleased Structures]]
[[Category: Kvansakul, M]]
[[Category: Banjara, S]]