6b80 - Revision history

OCA at 14:35, 4 October 2023

2023-10-04T14:35:10Z

←Older revision		Revision as of 14:35, 4 October 2023
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	<StructureSection load='6b80' size='340' side='right'caption='[[6b80]], [[Resolution\|resolution]] 1.95Å' scene=''>		<StructureSection load='6b80' size='340' side='right'caption='[[6b80]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[6b80]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Bothrops_moojeni Bothrops moojeni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B80 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=6B80 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[6b80]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Bothrops_moojeni Bothrops moojeni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B80 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6B80 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MYR:MYRISTIC+ACID'>MYR</scene>, <scene name='pdbligand=PE4:2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL'>PE4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</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]] 1.949Å</td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kf3\|4kf3]], [[4yv5\|4yv5]]~~</td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MYR:MYRISTIC+ACID'>MYR</scene>, <scene name='pdbligand=PE4:2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL'>PE4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></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=6b80 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b80 OCA], [~~http~~://pdbe.org/6b80 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=6b80 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/6b80 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=6b80 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=6b80 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b80 OCA], [https://pdbe.org/6b80 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6b80 RCSB], [https://www.ebi.ac.uk/pdbsum/6b80 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6b80 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/PA2H2_BOTMO PA2H2_BOTMO]] Snake venom phospholipase A2 homolog that lack enzymatic activity. Displays myotoxin and edema-inducing activities.	+	[https://www.uniprot.org/uniprot/PA2H2_BOTMO PA2H2_BOTMO] Snake venom phospholipase A2 homolog that lack enzymatic activity. Displays myotoxin and edema-inducing activities.
	<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 6b80" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 6b80" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Phospholipase A2 homolog\|Phospholipase A2 homolog]]
	== References ==		== References ==
	<references/>		<references/>
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	[[Category: Bothrops moojeni]]		[[Category: Bothrops moojeni]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Fontes~~, M R.M~~]]	+	[[Category: Fontes MRM]]
-	[[Category: Salvador~~, G H.M~~]]	+	[[Category: Salvador GHM]]
-	[[Category: Santos~~, J I.dos]]~~	+	[[Category: Dos Santos JI]]
-	~~[[Category: Myotoxin ii]]~~	+
-	~~[[Category: Phospholipase a2-like]]~~	+
-	~~[[Category: Toxin~~]]	+

OCA at 06:36, 17 April 2019

2019-04-17T06:36:18Z

←Older revision		Revision as of 06:36, 17 April 2019
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	==Crystal structure of myotoxin II from Bothrops moojeni complexed to myristic acid==		==Crystal structure of myotoxin II from Bothrops moojeni complexed to myristic acid==
-	<StructureSection load='6b80' size='340' side='right' caption='[[6b80]], [[Resolution\|resolution]] 1.95Å' scene=''>	+	<StructureSection load='6b80' size='340' side='right'caption='[[6b80]], [[Resolution\|resolution]] 1.95Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[6b80]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bothrops_moojeni Bothrops moojeni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B80 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6B80 FirstGlance]. <br>		<table><tr><td colspan='2'>[[6b80]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bothrops_moojeni Bothrops moojeni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B80 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6B80 FirstGlance]. <br>
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	</StructureSection>		</StructureSection>
	[[Category: Bothrops moojeni]]		[[Category: Bothrops moojeni]]
		+	[[Category: Large Structures]]
	[[Category: Fontes, M R.M]]		[[Category: Fontes, M R.M]]
	[[Category: Salvador, G H.M]]		[[Category: Salvador, G H.M]]

OCA at 07:45, 3 October 2018

2018-10-03T07:45:12Z

←Older revision		Revision as of 07:45, 3 October 2018
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-	'''Unreleased structure'''

-	~~The entry~~ 6b80 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of myotoxin II from Bothrops moojeni complexed to myristic acid==
		+	<StructureSection load='6b80' size='340' side='right' caption='[[6b80]], [[Resolution\|resolution]] 1.95Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[6b80]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Bothrops_moojeni Bothrops moojeni]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6B80 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6B80 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MYR:MYRISTIC+ACID'>MYR</scene>, <scene name='pdbligand=PE4:2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL'>PE4</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4kf3\|4kf3]], [[4yv5\|4yv5]]</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=6b80 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6b80 OCA], [http://pdbe.org/6b80 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6b80 RCSB], [http://www.ebi.ac.uk/pdbsum/6b80 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6b80 ProSAT]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/PA2H2_BOTMO PA2H2_BOTMO]] Snake venom phospholipase A2 homolog that lack enzymatic activity. Displays myotoxin and edema-inducing activities.
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The myotoxic mechanism for PLA2-like toxins has been proposed recently to be initiated by an allosteric change induced by a fatty acid binding to the protein, leading to the alignment of the membrane docking site (MDoS) and membrane disrupting site (MDiS). Previous structural studies performed by us demonstrated that MjTX-II, a PLA2-like toxin isolated from Bothrops moojeni, presents a different mode of ligand-interaction caused by natural amino acid substitutions and an insertion. Herein, we present four crystal structures of MjTX-II, in its apo state and complexed with fatty acids of different lengths. Analyses of these structures revealed slightly different oligomeric conformations but with both MDoSs in an arrangement that resembles an active-state PLA2-like structure. To explore the structural transitions between apo protein and fatty-acid complexes, we performed Normal Mode Molecular Dynamics simulations, revealing that oligomeric conformations of MjTX-II/fatty acid complexes may be reached in solution by the apo structure. Similar simulations with typical PLA2-like structures demonstrated that this transition is not possible without the presence of fatty acids. Thus, we hypothesize that MjTX-II does not require fatty acids to be active, although these ligands may eventually help in its stabilization by the formation of hydrogen bonds. Therefore, these results complement previous findings for MjTX-II and help us understand its particular ligand-binding properties and, more importantly, its particular mechanism of action, with a possible impact on the design of structure-based inhibitors for PLA2-like toxins in general.

-	~~Authors: Salvador, G.H.M~~., ~~dos~~ Santos, J.I., ~~Fontes, M~~.R.M.	+	Structural evidence for a fatty acid-independent myotoxic mechanism for a phospholipase A2-like toxin.,Salvador GHM, Dos Santos JI, Borges RJ, Fontes MRM Biochim Biophys Acta Proteins Proteom. 2018 Mar;1866(3):473-481. doi:, 10.1016/j.bbapap.2017.12.008. Epub 2017 Dec 27. PMID:29287778<ref>PMID:29287778</ref>

-	~~Description: Crystal structure~~ of ~~myotoxin II from Bothrops moojeni complexed to myristic acid~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	[[Category: ~~Unreleased Structures~~]]	+	</div>
-	[[Category: ~~Dos Santos~~, J.I]]	+	<div class="pdbe-citations 6b80" style="background-color:#fffaf0;"></div>
-	[[Category: Salvador, G.H.M]]	+	== References ==
-	[[Category: ~~Fontes~~, M.~~R.M~~]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Bothrops moojeni]]
		+	[[Category: Fontes, M R.M]]
		+	[[Category: Salvador, G H.M]]
		+	[[Category: Santos, J I.dos]]
		+	[[Category: Myotoxin ii]]
		+	[[Category: Phospholipase a2-like]]
		+	[[Category: Toxin]]

OCA at 05:46, 25 October 2017

2017-10-25T05:46:29Z

←Older revision		Revision as of 05:46, 25 October 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 6b80 is ON HOLD	+	The entry 6b80 is ON HOLD until Paper Publication

	Authors: Salvador, G.H.M., dos Santos, J.I., Fontes, M.R.M.		Authors: Salvador, G.H.M., dos Santos, J.I., Fontes, M.R.M.

OCA: Protected "6b80" [edit=sysop:move=sysop]

2017-10-11T05:39:40Z

Protected "6b80" [edit=sysop:move=sysop]

←Older revision

Revision as of 05:39, 11 October 2017

OCA: New page: '''Unreleased structure''' The entry 6b80 is ON HOLD Authors: Salvador, G.H.M., dos Santos, J.I., Fontes, M.R.M. Description: Crystal structure of myotoxin II from Bothrops moojeni com...

2017-10-11T05:39:39Z

New page: '''Unreleased structure''' The entry 6b80 is ON HOLD Authors: Salvador, G.H.M., dos Santos, J.I., Fontes, M.R.M. Description: Crystal structure of myotoxin II from Bothrops moojeni com...

New page

'''Unreleased structure'''

The entry 6b80 is ON HOLD

Authors: Salvador, G.H.M., dos Santos, J.I., Fontes, M.R.M.

Description: Crystal structure of myotoxin II from Bothrops moojeni complexed to myristic acid
[[Category: Unreleased Structures]]
[[Category: Dos Santos, J.I]]
[[Category: Salvador, G.H.M]]
[[Category: Fontes, M.R.M]]