4p24 - Revision history

OCA at 00:39, 28 December 2023

2023-12-28T00:39:23Z

←Older revision		Revision as of 00:39, 28 December 2023
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	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4p24]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_Mu50 Staphylococcus aureus subsp. aureus Mu50]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4P24 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4P24 FirstGlance]. <br>		<table><tr><td colspan='2'>[[4p24]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_Mu50 Staphylococcus aureus subsp. aureus Mu50]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4P24 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4P24 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</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]] 3.1Å</td></tr>
		+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</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=4p24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p24 OCA], [https://pdbe.org/4p24 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4p24 RCSB], [https://www.ebi.ac.uk/pdbsum/4p24 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4p24 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=4p24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p24 OCA], [https://pdbe.org/4p24 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4p24 RCSB], [https://www.ebi.ac.uk/pdbsum/4p24 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4p24 ProSAT]</span></td></tr>
	</table>		</table>

OCA at 12:37, 1 February 2023

2023-02-01T12:37:47Z

←Older revision		Revision as of 12:37, 1 February 2023
Line 1:		Line 1:

	==pore forming toxin==		==pore forming toxin==
-	<StructureSection load='4p24' size='340' side='right' caption='[[4p24]], [[Resolution\|resolution]] 3.10Å' scene=''>	+	<StructureSection load='4p24' size='340' side='right'caption='[[4p24]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4p24]] is a 7 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~Staam Staam~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4P24 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4P24 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4p24]] is a 7 chain structure with sequence from [https://en.wikipedia.org/wiki/Staphylococcus_aureus_subsp._aureus_Mu50 Staphylococcus aureus subsp. aureus Mu50]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4P24 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4P24 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>~~</td></tr>~~	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
-	~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4p1x\|4p1x]], [[4p1y\|4p1y]]</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=4p24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p24 OCA], [https://pdbe.org/4p24 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4p24 RCSB], [https://www.ebi.ac.uk/pdbsum/4p24 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4p24 ProSAT]</span></td></tr>
-	~~<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SAV1163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158878 STAAM])~~</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=4p24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p24 OCA], [~~http~~://pdbe.org/4p24 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4p24 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4p24 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4p24 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/A0A0J9X1Z2_STAAM A0A0J9X1Z2_STAAM]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 20:		Line 20:

	==See Also==		==See Also==
-	*[[Hemolysin\|Hemolysin]]	+	*[[Hemolysin 3D structures\|Hemolysin 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: ~~Staam~~]]	+	[[Category: Large Structures]]
-	[[Category: Sugawara, T]]	+	[[Category: Staphylococcus aureus subsp. aureus Mu50]]
-	[[Category: Tanaka, I]]	+	[[Category: Sugawara T]]
-	[[Category: Tanaka, Y]]	+	[[Category: Tanaka I]]
-	[[Category: Yamashita, D]]	+	[[Category: Tanaka Y]]
-	[[Category: Yao, M]]	+	[[Category: Yamashita D]]
-	~~[[Category: Pore forming toxin]]~~	+	[[Category: Yao M]]
-	~~[[Category: Toxin~~]]	+

OCA at 07:49, 21 March 2018

2018-03-21T07:49:46Z

←Older revision		Revision as of 07:49, 21 March 2018
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	<StructureSection load='4p24' size='340' side='right' caption='[[4p24]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='4p24' size='340' side='right' caption='[[4p24]], [[Resolution\|resolution]] 3.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[4p24]] is a 7 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4P24 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4P24 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[4p24]] is a 7 chain structure with sequence from [http://en.wikipedia.org/wiki/Staam Staam]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4P24 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4P24 FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4p1x\|4p1x]], [[4p1y\|4p1y]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4p1x\|4p1x]], [[4p1y\|4p1y]]</td></tr>
		+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">SAV1163 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=158878 STAAM])</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=4p24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p24 OCA], [http://pdbe.org/4p24 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4p24 RCSB], [http://www.ebi.ac.uk/pdbsum/4p24 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4p24 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=4p24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p24 OCA], [http://pdbe.org/4p24 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4p24 RCSB], [http://www.ebi.ac.uk/pdbsum/4p24 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4p24 ProSAT]</span></td></tr>
	</table>		</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Staphylococcal alpha-hemolysin (alpha-HL) is a beta-barrel pore-forming toxin (PFT) expressed by Staphylococcus aureus. alpha-HL is secreted as a water-soluble monomeric protein, which binds to target membranes and forms membrane-inserted heptameric pores. To explore the pore-forming mechanism of alpha-HL in detail, we determined the crystal structure of the alpha-HL monomer and prepore using H35A mutant and W179A/R200A mutant, respectively. Although the overall structure of the monomer was similar to that of other staphylococcal PFTs, a marked difference was observed in the N-terminal amino latch, which bent toward the prestem. Moreover, the prestem was fastened by the cap domain with a key hydrogen bond between Asp45 and Tyr118. Prepore structure showed that the transmembrane region is roughly formed with flexibility, although the upper half of the beta-barrel is formed appropriately. Structure comparison among monomer, prepore and pore revealed a series of motions, in which the N-terminal amino latch released upon oligomerization destroys its own key hydrogen bond betweem Asp45-Try118. This action initiated the protrusion of the prestem. Y118F mutant and the N-terminal truncated mutant markedly decreased in the hemolytic activity, indicating the importance of the key hydrogen bond and the N-terminal amino latch on the pore formation. Based on these observations, we proposed a dynamic molecular mechanism of pore formation for alpha-HL.
		+
		+	Structural basis for pore-forming mechanism of staphylococcal alpha-hemolysin.,Sugawara T, Yamashita D, Kato K, Peng Z, Ueda J, Kaneko J, Kamio Y, Tanaka Y, Yao M Toxicon. 2015 Sep 28. pii: S0041-0101(15)30093-3. doi:, 10.1016/j.toxicon.2015.09.033. PMID:26428390<ref>PMID:26428390</ref>
		+
		+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
		+	</div>
		+	<div class="pdbe-citations 4p24" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
	*[[Hemolysin\|Hemolysin]]		*[[Hemolysin\|Hemolysin]]
		+	== References ==
		+	<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Staam]]
	[[Category: Sugawara, T]]		[[Category: Sugawara, T]]
	[[Category: Tanaka, I]]		[[Category: Tanaka, I]]
Line 19:		Line 32:
	[[Category: Yao, M]]		[[Category: Yao, M]]
	[[Category: Pore forming toxin]]		[[Category: Pore forming toxin]]
		+	[[Category: Toxin]]

OCA at 17:03, 4 January 2017

2017-01-04T17:03:10Z

←Older revision		Revision as of 17:03, 4 January 2017
Line 1:		Line 1:
		+
	==pore forming toxin==		==pore forming toxin==
	<StructureSection load='4p24' size='340' side='right' caption='[[4p24]], [[Resolution\|resolution]] 3.10Å' scene=''>		<StructureSection load='4p24' size='340' side='right' caption='[[4p24]], [[Resolution\|resolution]] 3.10Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4p1x\|4p1x]], [[4p1y\|4p1y]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4p1x\|4p1x]], [[4p1y\|4p1y]]</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=4p24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p24 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4p24 RCSB], [http://www.ebi.ac.uk/pdbsum/4p24 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=4p24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p24 OCA], [http://pdbe.org/4p24 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4p24 RCSB], [http://www.ebi.ac.uk/pdbsum/4p24 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4p24 ProSAT]</span></td></tr>
	</table>		</table>
		+
		+	==See Also==
		+	*[[Hemolysin\|Hemolysin]]
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 11:53, 11 March 2015

2015-03-11T11:53:22Z

←Older revision		Revision as of 11:53, 11 March 2015
Line 1:		Line 1:
-	'''~~Unreleased structure~~'''	+	==pore forming toxin==
-		+	<StructureSection load='4p24' size='340' side='right' caption='[[4p24]], [[Resolution\|resolution]] 3.10Å' scene=''>
-	~~The entry~~ 4p24 is ~~ON HOLD until Paper Publication~~	+	== Structural highlights ==
-		+	<table><tr><td colspan='2'>[[4p24]] is a 7 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4P24 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4P24 FirstGlance]. <br>
-	~~Authors~~: ~~Sugawara, T~~.~~, Yamashita, D~~.~~, Tanaka, Y~~.~~, Tanaka, I~~.~~, Yao, M~~.	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene></td></tr>
-		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[4p1x\|4p1x]], [[4p1y\|4p1y]]</td></tr>
-	~~Description~~: ~~pore forming toxin~~	+	<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=4p24 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4p24 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4p24 RCSB], [http://www.ebi.ac.uk/pdbsum/4p24 PDBsum]</span></td></tr>
-	[[~~Category~~: ~~Unreleased Structures~~]]	+	</table>
		+	__TOC__
		+	</StructureSection>
	[[Category: Sugawara, T]]		[[Category: Sugawara, T]]
-	[[Category: Yao, M]]
-	[[Category: Yamashita, D]]
	[[Category: Tanaka, I]]		[[Category: Tanaka, I]]
	[[Category: Tanaka, Y]]		[[Category: Tanaka, Y]]
		+	[[Category: Yamashita, D]]
		+	[[Category: Yao, M]]
		+	[[Category: Pore forming toxin]]

OCA at 14:43, 24 December 2014

2014-12-24T14:43:47Z

←Older revision		Revision as of 14:43, 24 December 2014
Line 6:		Line 6:

	Description: pore forming toxin		Description: pore forming toxin
		+	[[Category: Unreleased Structures]]
		+	[[Category: Sugawara, T]]
		+	[[Category: Yao, M]]
		+	[[Category: Yamashita, D]]
		+	[[Category: Tanaka, I]]
		+	[[Category: Tanaka, Y]]

OCA at 07:06, 14 May 2014

2014-05-14T07:06:06Z

←Older revision		Revision as of 07:06, 14 May 2014
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 4p24 is ON HOLD	+	The entry 4p24 is ON HOLD until Paper Publication

	Authors: Sugawara, T., Yamashita, D., Tanaka, Y., Tanaka, I., Yao, M.		Authors: Sugawara, T., Yamashita, D., Tanaka, Y., Tanaka, I., Yao, M.

	Description: pore forming toxin		Description: pore forming toxin

OCA: Protected "4p24" [edit=sysop:move=sysop]

2014-03-12T12:29:19Z

Protected "4p24" [edit=sysop:move=sysop]

←Older revision

Revision as of 12:29, 12 March 2014

OCA: New page: '''Unreleased structure''' The entry 4p24 is ON HOLD Authors: Sugawara, T., Yamashita, D., Tanaka, Y., Tanaka, I., Yao, M. Description: pore forming toxin

2014-03-12T12:29:18Z

New page: '''Unreleased structure''' The entry 4p24 is ON HOLD Authors: Sugawara, T., Yamashita, D., Tanaka, Y., Tanaka, I., Yao, M. Description: pore forming toxin

New page

'''Unreleased structure'''

The entry 4p24 is ON HOLD

Authors: Sugawara, T., Yamashita, D., Tanaka, Y., Tanaka, I., Yao, M.

Description: pore forming toxin