5wu0 - Revision history

OCA at 16:54, 8 November 2023

OCA — Wed, 08 Nov 2023 16:54:02 GMT

←Older revision		Revision as of 16:54, 8 November 2023
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	<StructureSection load='5wu0' size='340' side='right'caption='[[5wu0]], [[Resolution\|resolution]] 2.25Å' scene=''>		<StructureSection load='5wu0' size='340' side='right'caption='[[5wu0]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wu0]] is a 1 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=5WU0 OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=5WU0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wu0]] is a 1 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=5WU0 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5WU0 FirstGlance]. <br>
-	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=NAI:1~~,~~4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</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]] 2.251Å</td></tr>
-	<tr id='~~related~~'><td class="sblockLbl"><b>[[~~Related_structure~~\|~~Related~~:]]</b></td><td class="sblockDat"~~>[[5wtz\|5wtz]]</td></tr>~~	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene></td></tr>
-	~~<tr~~ id~~='gene'><td class~~="~~sblockLbl~~"><~~b>[[Gene\|Gene~~:~~]]</b~~></td>~~<td class="sblockDat">becA ([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'>[https://proteopedia.org/fgij/fg.htm?mol=5wu0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wu0 OCA], [https://pdbe.org/5wu0 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5wu0 RCSB], [https://www.ebi.ac.uk/pdbsum/5wu0 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5wu0 ProSAT]</span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=5wu0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wu0 OCA], [~~http~~://pdbe.org/5wu0 PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=5wu0 RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/5wu0 PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=5wu0 ProSAT]</span></td></tr>	+
	</table>		</table>
		+	== Function ==
		+	[https://www.uniprot.org/uniprot/X5I2D7_CLOPF X5I2D7_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: Large Structures]]		[[Category: Large Structures]]
-	[[Category: Irikura, D]]	+	[[Category: Irikura D]]
-	[[Category: Toniti, W]]	+	[[Category: Toniti W]]
-	[[Category: Tsuge, H]]	+	[[Category: Tsuge H]]
-	[[Category: Tsurumura, T]]	+	[[Category: Tsurumura T]]
-	[[Category: Yoshida, T]]	+	[[Category: Yoshida T]]
-	~~[[Category: Actin]]~~	+
-	~~[[Category: Adp-ribosylation]]~~	+
-	~~[[Category: Bacterial toxin]]~~	+
-	~~[[Category: Cpile-a]]~~	+
-	~~[[Category: Toxin~~]]	+

OCA at 07:17, 7 October 2020

OCA — Wed, 07 Oct 2020 07:17:12 GMT

←Older revision		Revision as of 07:17, 7 October 2020
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	==Crystal structure of C. perfringens iota-like enterotoxin CPILE-a with NADH==		==Crystal structure of C. perfringens iota-like enterotoxin CPILE-a with NADH==
-	<StructureSection load='5wu0' size='340' side='right' caption='[[5wu0]], [[Resolution\|resolution]] 2.25Å' scene=''>	+	<StructureSection load='5wu0' size='340' side='right'caption='[[5wu0]], [[Resolution\|resolution]] 2.25Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[5wu0]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WU0 OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=5WU0 FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[5wu0]] is a 1 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=5WU0 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5WU0 FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene></td></tr>
	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wtz\|5wtz]]</td></tr>		<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wtz\|5wtz]]</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=5wu0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wu0 OCA], [http://pdbe.org/5wu0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wu0 RCSB], [http://www.ebi.ac.uk/pdbsum/5wu0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wu0 ProSAT]</span></td></tr>	+	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">becA ([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://proteopedia.org/fgij/fg.htm?mol=5wu0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wu0 OCA], [http://pdbe.org/5wu0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wu0 RCSB], [http://www.ebi.ac.uk/pdbsum/5wu0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wu0 ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Bacillus perfringens veillon and zuber 1898]]
		+	[[Category: Large Structures]]
	[[Category: Irikura, D]]		[[Category: Irikura, D]]
	[[Category: Toniti, W]]		[[Category: Toniti, W]]

OCA at 09:45, 11 March 2017

OCA — Sat, 11 Mar 2017 09:45:01 GMT

←Older revision		Revision as of 09:45, 11 March 2017
Line 1:		Line 1:
-	'''Unreleased structure'''

-	~~The entry~~ 5wu0 is ~~ON HOLD until Paper~~ Publication	+	==Crystal structure of C. perfringens iota-like enterotoxin CPILE-a with NADH==
		+	<StructureSection load='5wu0' size='340' side='right' caption='[[5wu0]], [[Resolution\|resolution]] 2.25Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[5wu0]] is a 1 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5WU0 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5WU0 FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=NAI:1,4-DIHYDRONICOTINAMIDE+ADENINE+DINUCLEOTIDE'>NAI</scene></td></tr>
		+	<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[5wtz\|5wtz]]</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=5wu0 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5wu0 OCA], [http://pdbe.org/5wu0 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5wu0 RCSB], [http://www.ebi.ac.uk/pdbsum/5wu0 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5wu0 ProSAT]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Unusual outbreaks of food poisoning in Japan were reported in which Clostridium perfringens was strongly suspected to be the cause based on epidemiological information and fingerprinting of isolates. The isolated strains lack the typical C. perfringens enterotoxin (CPE) but secrete a new enterotoxin consisting of two components: C. perfringens iota-like enterotoxin-a (CPILE-a), which acts as an enzymatic ADP-ribosyltransferase, and CPILE-b, a membrane binding component. Here we present the crystal structures of apo-CPILE-a, NAD+-CPILE-a and NADH-CPILE-a. Though CPILE-a structure has high similarity with known iota toxin-a (Ia) with NAD+, it possesses two extra-long protruding loops from G262-S269 and E402-K408 that are distinct from Ia. Based on the Ia-actin complex structure, we focused on actin-binding interface regions (I-V) including two protruding loops (PT) and examined how mutations in these regions affect the ADP-ribosylation activity of CPILE-a. Though some site-directed mutagenesis studies have already been conducted on the actin binding site of Ia, in the present study, mutagenesis studies were conducted against both alpha- and beta/gamma-actin in CPILE-a and Ia. Interestingly, CPILE-a ADP-ribosylates both alpha- and beta/gamma-actin, but its sensitivity towards beta/gamma-actin is 36% compared with alpha-actin. Our results contrast to that only C2-I ADP-ribosylates beta/gamma-actin. We also showed that PT-I and two convex-concave interactions in CPILE-a are important for actin binding. The current study is the first detailed analysis of site-directed mutagenesis in the actin binding region of Ia and CPILE-a against both alpha- and beta/gamma-actin.

-	~~Authors: Toniti~~, W., Yoshida, T., Tsurumura, T., Irikura, D., ~~Tsuge~~, H.	+	Crystal structure and structure-based mutagenesis of actin-specific ADP-ribosylating toxin CPILE-a as novel enterotoxin.,Toniti W, Yoshida T, Tsurumura T, Irikura D, Monma C, Kamata Y, Tsuge H PLoS One. 2017 Feb 15;12(2):e0171278. doi: 10.1371/journal.pone.0171278., eCollection 2017. PMID:28199340<ref>PMID:28199340</ref>

-	~~Description: Crystal structure~~ of C. ~~perfringens iota~~-~~like enterotoxin CPILE~~-a	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-	~~[[Category~~: ~~Unreleased Structures]]~~	+	</div>
-	~~[[Category: Yoshida, T]]~~	+	<div class="pdbe-citations 5wu0" style="background-color:#fffaf0;"></div>
-	~~[[Category: Toniti, W]]~~	+	== References ==
		+	<references/>
		+	__TOC__
		+	</StructureSection>
	[[Category: Irikura, D]]		[[Category: Irikura, D]]
		+	[[Category: Toniti, W]]
	[[Category: Tsuge, H]]		[[Category: Tsuge, H]]
	[[Category: Tsurumura, T]]		[[Category: Tsurumura, T]]
		+	[[Category: Yoshida, T]]
		+	[[Category: Actin]]
		+	[[Category: Adp-ribosylation]]
		+	[[Category: Bacterial toxin]]
		+	[[Category: Cpile-a]]
		+	[[Category: Toxin]]

OCA at 15:11, 18 January 2017

OCA — Wed, 18 Jan 2017 15:11:12 GMT

←Older revision		Revision as of 15:11, 18 January 2017
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

-	The entry 5wu0 is ON HOLD	+	The entry 5wu0 is ON HOLD until Paper Publication

	Authors: Toniti, W., Yoshida, T., Tsurumura, T., Irikura, D., Tsuge, H.		Authors: Toniti, W., Yoshida, T., Tsurumura, T., Irikura, D., Tsuge, H.

OCA: Protected "5wu0" [edit=sysop:move=sysop]

OCA — Thu, 22 Dec 2016 20:42:54 GMT

Protected "5wu0" [edit=sysop:move=sysop]

←Older revision

Revision as of 20:42, 22 December 2016

OCA: New page: '''Unreleased structure''' The entry 5wu0 is ON HOLD Authors: Toniti, W., Yoshida, T., Tsurumura, T., Irikura, D., Tsuge, H. Description: Crystal structure of C. perfringens iota-like ...

OCA — Thu, 22 Dec 2016 20:42:53 GMT

New page: '''Unreleased structure''' The entry 5wu0 is ON HOLD Authors: Toniti, W., Yoshida, T., Tsurumura, T., Irikura, D., Tsuge, H. Description: Crystal structure of C. perfringens iota-like ...

New page

'''Unreleased structure'''

The entry 5wu0 is ON HOLD

Authors: Toniti, W., Yoshida, T., Tsurumura, T., Irikura, D., Tsuge, H.

Description: Crystal structure of C. perfringens iota-like enterotoxin CPILE-a
[[Category: Unreleased Structures]]
[[Category: Yoshida, T]]
[[Category: Toniti, W]]
[[Category: Irikura, D]]
[[Category: Tsuge, H]]
[[Category: Tsurumura, T]]