5bpg - Revision history

OCA at 16:04, 8 November 2023

OCA — Wed, 08 Nov 2023 16:04:59 GMT

←Older revision		Revision as of 16:04, 8 November 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[5bpg]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Actinia_fragacea Actinia fragacea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BPG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5BPG FirstGlance]. <br>		<table><tr><td colspan='2'>[[5bpg]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Actinia_fragacea Actinia fragacea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BPG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5BPG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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]] 2.14Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></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=5bpg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bpg OCA], [https://pdbe.org/5bpg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5bpg RCSB], [https://www.ebi.ac.uk/pdbsum/5bpg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5bpg 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=5bpg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bpg OCA], [https://pdbe.org/5bpg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5bpg RCSB], [https://www.ebi.ac.uk/pdbsum/5bpg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5bpg ProSAT]</span></td></tr>
	</table>		</table>

OCA at 06:02, 7 June 2023

OCA — Wed, 07 Jun 2023 06:02:47 GMT

←Older revision		Revision as of 06:02, 7 June 2023
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	<StructureSection load='5bpg' size='340' side='right'caption='[[5bpg]], [[Resolution\|resolution]] 2.14Å' scene=''>		<StructureSection load='5bpg' size='340' side='right'caption='[[5bpg]], [[Resolution\|resolution]] 2.14Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5bpg]] is a 4 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Actfr Actfr~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BPG OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5BPG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5bpg]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Actinia_fragacea Actinia fragacea]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BPG OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5BPG FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=5bpg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bpg OCA], [~~http~~://pdbe.org/5bpg PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5bpg RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5bpg PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5bpg 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=5bpg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bpg OCA], [https://pdbe.org/5bpg PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5bpg RCSB], [https://www.ebi.ac.uk/pdbsum/5bpg PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5bpg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[~~[http~~://www.uniprot.org/uniprot/ACTPC_ACTFR ACTPC_ACTFR]] Pore-forming protein that forms cations-selective hydrophilic pores of around 1 nm and causes cardiac stimulation and hemolysis. Pore formation is a multi-step process that involves specific recognition of membrane sphingomyelin (but neither cholesterol nor phosphatidylcholine) using aromatic rich region and adjacent phosphocholine (POC) binding site, firm binding to the membrane (mainly driven by hydrophobic interactions) accompanied by the transfer of the N-terminal region to the lipid-water interface and finally pore formation after oligomerization of several monomers.<ref>PMID:19563820</ref>	+	[https://www.uniprot.org/uniprot/ACTPC_ACTFR ACTPC_ACTFR] Pore-forming protein that forms cations-selective hydrophilic pores of around 1 nm and causes cardiac stimulation and hemolysis. Pore formation is a multi-step process that involves specific recognition of membrane sphingomyelin (but neither cholesterol nor phosphatidylcholine) using aromatic rich region and adjacent phosphocholine (POC) binding site, firm binding to the membrane (mainly driven by hydrophobic interactions) accompanied by the transfer of the N-terminal region to the lipid-water interface and finally pore formation after oligomerization of several monomers.<ref>PMID:19563820</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Actfr~~]]	+	[[Category: Actinia fragacea]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Caaveiro~~, J M.M~~]]	+	[[Category: Caaveiro JMM]]
-	[[Category: Tanaka, K]]	+	[[Category: Tanaka K]]
-	[[Category: Tsumoto, K]]	+	[[Category: Tsumoto K]]
-	~~[[Category: Actinoporin]]~~	+
-	~~[[Category: Detergent]]~~	+
-	~~[[Category: Lipid-protein interaction]]~~	+
-	~~[[Category: Membrane lipid]]~~	+
-	~~[[Category: Pore-forming toxin]]~~	+
-	~~[[Category: Protein folding]]~~	+
-	~~[[Category: Protein-detergent interaction]]~~	+
-	~~[[Category: Toxin~~]]	+

OCA at 07:08, 19 February 2020

OCA — Wed, 19 Feb 2020 07:08:12 GMT

←Older revision		Revision as of 07:08, 19 February 2020
Line 1:		Line 1:
		+
	==Crystal structure of the water-soluble FraC purified starting from the trans-membrane pore==		==Crystal structure of the water-soluble FraC purified starting from the trans-membrane pore==
-	<StructureSection load='5bpg' size='340' side='right' caption='[[5bpg]], [[Resolution\|resolution]] 2.14Å' scene=''>	+	<StructureSection load='5bpg' size='340' side='right'caption='[[5bpg]], [[Resolution\|resolution]] 2.14Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5bpg]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BPG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5BPG FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5bpg]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Actfr Actfr]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BPG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5BPG FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=5bpg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bpg OCA], [http://pdbe.org/5bpg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5bpg RCSB], [http://www.ebi.ac.uk/pdbsum/5bpg PDBsum]</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=5bpg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bpg OCA], [http://pdbe.org/5bpg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5bpg RCSB], [http://www.ebi.ac.uk/pdbsum/5bpg PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5bpg ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 17:		Line 18:
	</div>		</div>
	<div class="pdbe-citations 5bpg" style="background-color:#fffaf0;"></div>		<div class="pdbe-citations 5bpg" style="background-color:#fffaf0;"></div>
		+
		+	==See Also==
		+	*[[Cytolysin 3D structures\|Cytolysin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Actfr]]
		+	[[Category: Large Structures]]
	[[Category: Caaveiro, J M.M]]		[[Category: Caaveiro, J M.M]]
	[[Category: Tanaka, K]]		[[Category: Tanaka, K]]

OCA at 21:02, 30 November 2015

OCA — Mon, 30 Nov 2015 21:02:51 GMT

←Older revision		Revision as of 21:02, 30 November 2015
Line 1:		Line 1:
-	'''~~Unreleased~~ structure'''	+	==Crystal structure of the water-soluble FraC purified starting from the trans-membrane pore==
		+	<StructureSection load='5bpg' size='340' side='right' caption='[[5bpg]], [[Resolution\|resolution]] 2.14Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5bpg]] is a 4 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5BPG OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5BPG FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</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=5bpg FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5bpg OCA], [http://pdbe.org/5bpg PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5bpg RCSB], [http://www.ebi.ac.uk/pdbsum/5bpg PDBsum]</span></td></tr>
		+	</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/ACTPC_ACTFR ACTPC_ACTFR]] Pore-forming protein that forms cations-selective hydrophilic pores of around 1 nm and causes cardiac stimulation and hemolysis. Pore formation is a multi-step process that involves specific recognition of membrane sphingomyelin (but neither cholesterol nor phosphatidylcholine) using aromatic rich region and adjacent phosphocholine (POC) binding site, firm binding to the membrane (mainly driven by hydrophobic interactions) accompanied by the transfer of the N-terminal region to the lipid-water interface and finally pore formation after oligomerization of several monomers.<ref>PMID:19563820</ref>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	The bidirectional transformation of a protein between its native water-soluble and integral transmembrane conformations is demonstrated for FraC, a hemolytic protein of the family of pore-forming toxins. In the presence of biological membranes, the water-soluble conformation of FraC undergoes a remarkable structural reorganization generating cytolytic transmembrane nanopores conducive to cell death. So far, the reverse transformation from the native transmembrane conformation to the native water-soluble conformation has not been reported. We describe the use of detergents with different physicochemical properties to achieve the spontaneous conversion of transmembrane pores of FraC back into the initial water-soluble state. Thermodynamic and kinetic stability data suggest that specific detergents cause an asymmetric change in the energy landscape of the protein, allowing the bidirectional transformation of a membrane protein.

-	~~The entry 5bpg is ON HOLD until Paper Publication~~	+	Bidirectional Transformation of a Metamorphic Protein between the Water-Soluble and Transmembrane Native States.,Tanaka K, Caaveiro JM, Tsumoto K Biochemistry. 2015 Nov 24;54(46):6863-6. doi: 10.1021/acs.biochem.5b01112. Epub, 2015 Nov 11. PMID:26544760<ref>PMID:26544760</ref>

-	~~Authors: Caaveiro~~, J.M.~~M., Tanaka, K., Tsumoto, K~~.	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~Description~~:	+	<div class="pdbe-citations 5bpg" style="background-color:#fffaf0;"></div>
-	~~[[Category: Unreleased Structures]]~~	+	== References ==
-	[[Category: Caaveiro, J.M.M]]	+	<references/>
		+	__TOC__
		+	</StructureSection>
		+	[[Category: Caaveiro, J M.M]]
	[[Category: Tanaka, K]]		[[Category: Tanaka, K]]
	[[Category: Tsumoto, K]]		[[Category: Tsumoto, K]]
		+	[[Category: Actinoporin]]
		+	[[Category: Detergent]]
		+	[[Category: Lipid-protein interaction]]
		+	[[Category: Membrane lipid]]
		+	[[Category: Pore-forming toxin]]
		+	[[Category: Protein folding]]
		+	[[Category: Protein-detergent interaction]]
		+	[[Category: Toxin]]

OCA at 13:45, 17 June 2015

OCA — Wed, 17 Jun 2015 13:45:47 GMT

←Older revision		Revision as of 13:45, 17 June 2015
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

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

	Authors: Caaveiro, J.M.M., Tanaka, K., Tsumoto, K.		Authors: Caaveiro, J.M.M., Tanaka, K., Tsumoto, K.

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

OCA — Wed, 03 Jun 2015 11:45:59 GMT

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

←Older revision

Revision as of 11:45, 3 June 2015

OCA: New page: '''Unreleased structure''' The entry 5bpg is ON HOLD Authors: Caaveiro, J.M.M., Tanaka, K., Tsumoto, K. Description: Category: Unreleased Structures Category: Caaveiro, J.M.M ...

OCA — Wed, 03 Jun 2015 11:45:58 GMT

New page: '''Unreleased structure''' The entry 5bpg is ON HOLD Authors: Caaveiro, J.M.M., Tanaka, K., Tsumoto, K. Description: Category: Unreleased Structures Category: Caaveiro, J.M.M ...

New page

'''Unreleased structure'''

The entry 5bpg is ON HOLD

Authors: Caaveiro, J.M.M., Tanaka, K., Tsumoto, K.

Description:
[[Category: Unreleased Structures]]
[[Category: Caaveiro, J.M.M]]
[[Category: Tanaka, K]]
[[Category: Tsumoto, K]]