4h56 - Revision history

OCA at 15:00, 20 September 2023

2023-09-20T15:00:23Z

←Older revision		Revision as of 15:00, 20 September 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4h56]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H56 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4H56 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4h56]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H56 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4H56 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=4h56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h56 OCA], [https://pdbe.org/4h56 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4h56 RCSB], [https://www.ebi.ac.uk/pdbsum/4h56 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4h56 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]] 3.9Å</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=4h56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h56 OCA], [https://pdbe.org/4h56 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4h56 RCSB], [https://www.ebi.ac.uk/pdbsum/4h56 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4h56 ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 08:00, 3 November 2022

2022-11-03T08:00:27Z

←Older revision		Revision as of 08:00, 3 November 2022
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	==Crystal structure of the Clostridium perfringens NetB toxin in the membrane inserted form==		==Crystal structure of the Clostridium perfringens NetB toxin in the membrane inserted form==
-	<StructureSection load='4h56' size='340' side='right' caption='[[4h56]], [[Resolution\|resolution]] 3.90Å' scene=''>	+	<StructureSection load='4h56' size='340' side='right'caption='[[4h56]], [[Resolution\|resolution]] 3.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4h56]] is a 14 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillus_perfringens"_veillon_and_zuber_1898 "bacillus~~ perfringens~~" veillon and zuber 1898~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H56 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4H56 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4h56]] is a 14 chain structure with sequence from [https://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H56 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4H56 FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">netB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1502 "Bacillus perfringens" Veillon and Zuber 1898])</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=4h56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h56 OCA], [https://pdbe.org/4h56 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4h56 RCSB], [https://www.ebi.ac.uk/pdbsum/4h56 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4h56 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=4h56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h56 OCA], [~~http~~://pdbe.org/4h56 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4h56 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4h56 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4h56 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A8ULG6_CLOPF A8ULG6_CLOPF]
	<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: ~~Bacillus~~ perfringens ~~veillon and zuber 1898~~]]	+	[[Category: Clostridium perfringens]]
-	[[Category: Basak~~, A K~~]]	+	[[Category: Large Structures]]
-	[[Category: Bokori-Brown, M]]	+	[[Category: Basak AK]]
-	[[Category: Cole~~, A R~~]]	+	[[Category: Bokori-Brown M]]
-	[[Category: ~~Costa, S P.~~Fernandes da]]	+	[[Category: Cole AR]]
-	[[Category: Moss~~, D S~~]]	+	[[Category: Fernandes da Costa SP]]
-	[[Category: Naylor, C]]	+	[[Category: Moss DS]]
-	[[Category: Savva~~, C G~~]]	+	[[Category: Naylor C]]
-	[[Category: Titball~~, R W]]~~	+	[[Category: Savva CG]]
-	~~[[Category: Beta barrel]]~~	+	[[Category: Titball RW]]
-	~~[[Category: Extracellular and membrane]]~~	+
-	~~[[Category: Necrotic enteritis]]~~	+
-	~~[[Category: Pore forming toxin]]~~	+
-	~~[[Category: Toxin~~]]	+

OCA at 19:47, 15 December 2016

2016-12-15T19:47:06Z

←Older revision		Revision as of 19:47, 15 December 2016
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		+
	==Crystal structure of the Clostridium perfringens NetB toxin in the membrane inserted form==		==Crystal structure of the Clostridium perfringens NetB toxin in the membrane inserted form==
	<StructureSection load='4h56' size='340' side='right' caption='[[4h56]], [[Resolution\|resolution]] 3.90Å' scene=''>		<StructureSection load='4h56' size='340' side='right' caption='[[4h56]], [[Resolution\|resolution]] 3.90Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4h56]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Clostridium_perfringens Clostridium~~ perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H56 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4H56 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4h56]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_perfringens"_veillon_and_zuber_1898 "bacillus perfringens" veillon and zuber 1898]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H56 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4H56 FirstGlance]. <br>
-	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">netB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1502 ~~Clostridium~~ perfringens])</td></tr>	+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">netB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1502 "Bacillus perfringens" Veillon and Zuber 1898])</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=4h56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h56 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4h56 RCSB], [http://www.ebi.ac.uk/pdbsum/4h56 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=4h56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h56 OCA], [http://pdbe.org/4h56 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4h56 RCSB], [http://www.ebi.ac.uk/pdbsum/4h56 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4h56 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 14:		Line 15:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 4h56" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Clostridium~~ perfringens]]	+	[[Category: Bacillus perfringens veillon and zuber 1898]]
	[[Category: Basak, A K]]		[[Category: Basak, A K]]
	[[Category: Bokori-Brown, M]]		[[Category: Bokori-Brown, M]]

OCA at 09:01, 10 December 2014

2014-12-10T09:01:30Z

←Older revision		Revision as of 09:01, 10 December 2014
Line 1:		Line 1:
-	[[~~Image:~~4h56.~~png~~\|~~left\|200px~~]]	+	==Crystal structure of the Clostridium perfringens NetB toxin in the membrane inserted form==
		+	<StructureSection load='4h56' size='340' side='right' caption='[[4h56]], [[Resolution\|resolution]] 3.90Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[4h56]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H56 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4H56 FirstGlance]. <br>
		+	</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">netB ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1502 Clostridium perfringens])</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=4h56 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4h56 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4h56 RCSB], [http://www.ebi.ac.uk/pdbsum/4h56 PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	NetB is a pore-forming toxin produced by Clostridium perfringens and has been reported to play a major role in the pathogenesis of avian necrotic enteritis, a disease that has emerged due to the removal of antibiotics in animal feedstuffs. Here we present the crystal structure of the pore-form of NetB solved to 3.9A. The heptameric assembly shares structural homology to the Staphylococcal alpha-hemolysin. However, the rim domain, a region that is thought to interact with the target cell membrane shows sequence and structural divergence leading to the alteration of a phosphocholine binding pocket found in the staphylococcal toxins. Consistent with the structure we show that NetB does not bind phosphocholine efficiently but instead interacts directly with cholesterol leading to enhanced oligomerisation and pore formation. Finally we have identified conserved and non-conserved amino acid positions within the rim loops that significantly affect binding and toxicity of NetB. These findings present new insights into the mode of action of these pore-forming toxins enabling the design of more effective control measures against necrotic enteritis and providing potential new tools to the field of bionanotechnology.

-	~~{{STRUCTURE_4h56\| PDB=4h56 \| SCENE= }}~~	+	Molecular architecture and functional analysis of NetB, a pore-forming toxin from Clostridium perfringens.,Savva CG, Fernandes da Costa SP, Bokori-Brown M, Naylor CE, Cole AR, Moss DS, Titball RW, Basak AK J Biol Chem. 2012 Dec 13. PMID:23239883<ref>PMID:23239883</ref>

-	~~===Crystal structure~~ of the ~~Clostridium perfringens NetB toxin in the membrane inserted form===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_23239883}}~~	+	== References ==
-		+	<references/>
-	==~~About this Structure~~==	+	__TOC__
-	~~[[4h56]] is a 14 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H56 OCA].~~	+	</StructureSection>
	[[Category: Clostridium perfringens]]		[[Category: Clostridium perfringens]]
-	[[Category: Basak, A K.]]	+	[[Category: Basak, A K]]
-	[[Category: Bokori-Brown, M.]]	+	[[Category: Bokori-Brown, M]]
-	[[Category: Cole, A R.]]	+	[[Category: Cole, A R]]
-	[[Category: Costa, S P.Fernandes da.]]	+	[[Category: Costa, S P.Fernandes da]]
-	[[Category: Moss, D S.]]	+	[[Category: Moss, D S]]
-	[[Category: Naylor, C.]]	+	[[Category: Naylor, C]]
-	[[Category: Savva, C G.]]	+	[[Category: Savva, C G]]
-	[[Category: Titball, R W.]]	+	[[Category: Titball, R W]]
	[[Category: Beta barrel]]		[[Category: Beta barrel]]
	[[Category: Extracellular and membrane]]		[[Category: Extracellular and membrane]]

OCA at 12:29, 6 March 2013

2013-03-06T12:29:30Z

←Older revision		Revision as of 12:29, 6 March 2013
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-	[[Image:4h56.~~jpg~~\|left\|200px]]	+	[[Image:4h56.png\|left\|200px]]

	{{STRUCTURE_4h56\| PDB=4h56 \| SCENE= }}		{{STRUCTURE_4h56\| PDB=4h56 \| SCENE= }}

OCA at 06:52, 2 January 2013

2013-01-02T06:52:45Z

←Older revision		Revision as of 06:52, 2 January 2013
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:4h56.jpg\|left\|200px]]

-	~~The entry~~ 4h56 ~~is ON HOLD~~ ~~until Paper Publication~~	+	{{STRUCTURE_4h56\| PDB=4h56 \| SCENE= }}

-	~~Authors: Savva, C.G, Fernandes da Costa, S.P., Bokori-Brown, M., Naylor, C., Cole, A.R., Moss, D.S., Titball, R.W., Basak, A.K.~~	+	===Crystal structure of the Clostridium perfringens NetB toxin in the membrane inserted form===

-	~~Description: Crystal~~ structure ~~of the~~ Clostridium perfringens ~~NetB toxin in the~~ membrane ~~inserted form~~	+	{{ABSTRACT_PUBMED_23239883}}
		+
		+	==About this Structure==
		+	[[4h56]] is a 14 chain structure with sequence from [http://en.wikipedia.org/wiki/Clostridium_perfringens Clostridium perfringens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4H56 OCA].
		+	[[Category: Clostridium perfringens]]
		+	[[Category: Basak, A K.]]
		+	[[Category: Bokori-Brown, M.]]
		+	[[Category: Cole, A R.]]
		+	[[Category: Costa, S P.Fernandes da.]]
		+	[[Category: Moss, D S.]]
		+	[[Category: Naylor, C.]]
		+	[[Category: Savva, C G.]]
		+	[[Category: Titball, R W.]]
		+	[[Category: Beta barrel]]
		+	[[Category: Extracellular and membrane]]
		+	[[Category: Necrotic enteritis]]
		+	[[Category: Pore forming toxin]]
		+	[[Category: Toxin]]

OCA at 06:56, 10 October 2012

2012-10-10T06:56:08Z

←Older revision		Revision as of 06:56, 10 October 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4h56 is ON HOLD	+	The entry 4h56 is ON HOLD until Paper Publication

	Authors: Savva, C.G, Fernandes da Costa, S.P., Bokori-Brown, M., Naylor, C., Cole, A.R., Moss, D.S., Titball, R.W., Basak, A.K.		Authors: Savva, C.G, Fernandes da Costa, S.P., Bokori-Brown, M., Naylor, C., Cole, A.R., Moss, D.S., Titball, R.W., Basak, A.K.

	Description: Crystal structure of the Clostridium perfringens NetB toxin in the membrane inserted form		Description: Crystal structure of the Clostridium perfringens NetB toxin in the membrane inserted form

OCA: Protected "4h56" [edit=sysop:move=sysop]

2012-09-26T20:12:52Z

Protected "4h56" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:12, 26 September 2012

OCA: New page: '''Unreleased structure''' The entry 4h56 is ON HOLD Authors: Savva, C.G, Fernandes da Costa, S.P., Bokori-Brown, M., Naylor, C., Cole, A.R., Moss, D.S., Titball, R.W., Basak, A.K. Des...

2012-09-26T20:12:51Z

New page: '''Unreleased structure''' The entry 4h56 is ON HOLD Authors: Savva, C.G, Fernandes da Costa, S.P., Bokori-Brown, M., Naylor, C., Cole, A.R., Moss, D.S., Titball, R.W., Basak, A.K. Des...

New page

'''Unreleased structure'''

The entry 4h56 is ON HOLD

Authors: Savva, C.G, Fernandes da Costa, S.P., Bokori-Brown, M., Naylor, C., Cole, A.R., Moss, D.S., Titball, R.W., Basak, A.K.

Description: Crystal structure of the Clostridium perfringens NetB toxin in the membrane inserted form