4fml - Revision history

OCA at 11:18, 1 March 2024

2024-03-01T11:18:03Z

← Older revision		Revision as of 11:18, 1 March 2024
Line 4:		Line 4:
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4fml]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Aeromonas_hydrophila Aeromonas hydrophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FML OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FML FirstGlance]. <br>		<table><tr><td colspan='2'>[[4fml]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Aeromonas_hydrophila Aeromonas hydrophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FML OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FML 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=4fml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fml OCA], [https://pdbe.org/4fml PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fml RCSB], [https://www.ebi.ac.uk/pdbsum/4fml PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fml 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]] 1.93Å</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=4fml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fml OCA], [https://pdbe.org/4fml PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fml RCSB], [https://www.ebi.ac.uk/pdbsum/4fml PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fml ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
	[https://www.uniprot.org/uniprot/Q49TP5_AERHY Q49TP5_AERHY]		[https://www.uniprot.org/uniprot/Q49TP5_AERHY Q49TP5_AERHY]
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	The mono-ADP-ribosyltransferase (mART) toxins are contributing factors to a number of human diseases, including cholera, diphtheria, traveler's diarrhea, and whooping cough. VahC is a cytotoxic, actin-targeting mART from Aeromonas hydrophila PPD134/91. This bacterium is implicated primarily in diseases among freshwater fish species but also contributes to gastrointestinal and extraintestinal infections in humans. VahC was shown to ADP-ribosylate Arg-177 of actin, and the kinetic parameters were K(m)(NAD(+)) = 6 muM, K(m)(actin) = 24 muM, and k(cat) = 22 s(-1). VahC activity caused depolymerization of actin filaments, which induced caspase-mediated apoptosis in HeLa Tet-Off cells. Alanine-scanning mutagenesis of predicted catalytic residues showed the predicted loss of in vitro mART activity and cytotoxicity. Bioinformatic and kinetic analysis also identified three residues in the active site loop that were critical for the catalytic mechanism. A 1.9 A crystal structure supported the proposed roles of these residues and their conserved nature among toxin homologues. Several small molecules were characterized as inhibitors of in vitro VahC mART activity and suramin was the best inhibitor (IC(50) = 20 muM). Inhibitor activity was also characterized against two other actin-targeting mART toxins. Notably, these inhibitors represent the first report of broad spectrum inhibition of actin-targeting mART toxins.

	Characterization of an actin-targeting ADP-ribosyltransferase from Aeromonas hydrophila.,Shniffer A, Visschedyk DD, Ravulapalli R, Suarez G, Turgeon ZJ, Petrie AA, Chopra AK, Merrill AR J Biol Chem. 2012 Oct 26;287(44):37030-41. doi: 10.1074/jbc.M112.397612. Epub, 2012 Sep 11. PMID:22969084<ref>PMID:22969084</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 4fml" style="background-color:#fffaf0;"></div>~~
	~~== References ==~~
	~~<references/>~~
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>

OCA at 19:58, 19 October 2022

2022-10-19T19:58:51Z

← Older revision		Revision as of 19:58, 19 October 2022
Line 1:		Line 1:

	==Catalytic domain of VahC from Aeromonas hydrophila==		==Catalytic domain of VahC from Aeromonas hydrophila==
	<StructureSection load='4fml' size='340' side='right' caption='[[4fml]], [[Resolution\|resolution]] 1.93Å' scene=''>		<StructureSection load='4fml' size='340' side='right'caption='[[4fml]], [[Resolution\|resolution]] 1.93Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4fml]] is a 3 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"aeromonas_liquefaciens"_kluyver_and_van_niel_1936 "aeromonas liquefaciens" kluyver and van niel 1936~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FML OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=4FML FirstGlance]. <br>		<table><tr><td colspan='2'>[[4fml]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Aeromonas_hydrophila Aeromonas hydrophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FML OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=4FML FirstGlance]. <br>
	</td></tr>~~<tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nts\|3nts]]</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=4fml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fml OCA], [https://pdbe.org/4fml PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=4fml RCSB], [https://www.ebi.ac.uk/pdbsum/4fml PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=4fml ProSAT]</span></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VahC, vsdC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=644 "Aeromonas liquefaciens" Kluyver and van Niel 1936])</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=4fml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fml OCA], [~~http~~://pdbe.org/4fml PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=4fml RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/4fml PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=4fml ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/Q49TP5_AERHY Q49TP5_AERHY]
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 21:		Line 21:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Aeromonas ~~liquefaciens kluyver and van niel 1936~~]]		[[Category: Aeromonas hydrophila]]
	[[Category: ~~Kimber, M S~~]]		[[Category: Large Structures]]
	[[Category: ~~Merrill, A R~~]]		[[Category: Kimber MS]]
	[[Category: ~~Ravulapalli, R~~]]		[[Category: Merrill AR]]
	[[Category: ~~Transferase~~]]		[[Category: Ravulapalli R]]

OCA at 19:53, 15 December 2016

2016-12-15T19:53:08Z

← Older revision		Revision as of 19:53, 15 December 2016
Line 1:		Line 1:

	==Catalytic domain of VahC from Aeromonas hydrophila==		==Catalytic domain of VahC from Aeromonas hydrophila==
	<StructureSection load='4fml' size='340' side='right' caption='[[4fml]], [[Resolution\|resolution]] 1.93Å' scene=''>		<StructureSection load='4fml' size='340' side='right' caption='[[4fml]], [[Resolution\|resolution]] 1.93Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[4fml]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Aeromonas_hydrophila Aeromonas hydrophila~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FML FirstGlance]. <br>		<table><tr><td colspan='2'>[[4fml]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/"aeromonas_liquefaciens"_kluyver_and_van_niel_1936 "aeromonas liquefaciens" kluyver and van niel 1936]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FML FirstGlance]. <br>
	</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nts\|3nts]]</td></tr>		</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nts\|3nts]]</td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VahC, vsdC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=644 Aeromonas ~~hydrophila~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VahC, vsdC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=644 "Aeromonas liquefaciens" Kluyver and van Niel 1936])</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=4fml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fml OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4fml RCSB], [http://www.ebi.ac.uk/pdbsum/4fml 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=4fml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fml OCA], [http://pdbe.org/4fml PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=4fml RCSB], [http://www.ebi.ac.uk/pdbsum/4fml PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=4fml ProSAT]</span></td></tr>
	</table>		</table>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
Line 15:		Line 16:
	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 4fml" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: Aeromonas ~~hydrophila~~]]		[[Category: Aeromonas liquefaciens kluyver and van niel 1936]]
	[[Category: Kimber, M S]]		[[Category: Kimber, M S]]
	[[Category: Merrill, A R]]		[[Category: Merrill, A R]]
	[[Category: Ravulapalli, R]]		[[Category: Ravulapalli, R]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 15:42, 9 December 2014

2014-12-09T15:42:34Z

← Older revision		Revision as of 15:42, 9 December 2014
Line 1:		Line 1:
	[[~~Image~~:~~4fml~~.~~png~~\|~~left~~\|~~200px~~]]		==Catalytic domain of VahC from Aeromonas hydrophila==
			<StructureSection load='4fml' size='340' side='right' caption='[[4fml]], [[Resolution\|resolution]] 1.93Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[4fml]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Aeromonas_hydrophila Aeromonas hydrophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FML OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=4FML FirstGlance]. <br>
			</td></tr><tr id='related'><td class="sblockLbl"><b>[[Related_structure\|Related:]]</b></td><td class="sblockDat">[[3nts\|3nts]]</td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">VahC, vsdC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=644 Aeromonas hydrophila])</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=4fml FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=4fml OCA], [http://www.rcsb.org/pdb/explore.do?structureId=4fml RCSB], [http://www.ebi.ac.uk/pdbsum/4fml PDBsum]</span></td></tr>
			</table>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			The mono-ADP-ribosyltransferase (mART) toxins are contributing factors to a number of human diseases, including cholera, diphtheria, traveler's diarrhea, and whooping cough. VahC is a cytotoxic, actin-targeting mART from Aeromonas hydrophila PPD134/91. This bacterium is implicated primarily in diseases among freshwater fish species but also contributes to gastrointestinal and extraintestinal infections in humans. VahC was shown to ADP-ribosylate Arg-177 of actin, and the kinetic parameters were K(m)(NAD(+)) = 6 muM, K(m)(actin) = 24 muM, and k(cat) = 22 s(-1). VahC activity caused depolymerization of actin filaments, which induced caspase-mediated apoptosis in HeLa Tet-Off cells. Alanine-scanning mutagenesis of predicted catalytic residues showed the predicted loss of in vitro mART activity and cytotoxicity. Bioinformatic and kinetic analysis also identified three residues in the active site loop that were critical for the catalytic mechanism. A 1.9 A crystal structure supported the proposed roles of these residues and their conserved nature among toxin homologues. Several small molecules were characterized as inhibitors of in vitro VahC mART activity and suramin was the best inhibitor (IC(50) = 20 muM). Inhibitor activity was also characterized against two other actin-targeting mART toxins. Notably, these inhibitors represent the first report of broad spectrum inhibition of actin-targeting mART toxins.

	~~{{STRUCTURE_4fml\| PDB=4fml \| SCENE= }}~~		Characterization of an actin-targeting ADP-ribosyltransferase from Aeromonas hydrophila.,Shniffer A, Visschedyk DD, Ravulapalli R, Suarez G, Turgeon ZJ, Petrie AA, Chopra AK, Merrill AR J Biol Chem. 2012 Oct 26;287(44):37030-41. doi: 10.1074/jbc.M112.397612. Epub, 2012 Sep 11. PMID:22969084<ref>PMID:22969084</ref>

	~~===Catalytic domain~~ of ~~VahC from Aeromonas hydrophila===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_22969084}}~~		== References ==
			<references/>
	==~~About this Structure~~==		__TOC__
	~~[[4fml]] is a 3 chain structure with sequence from [http:~~//~~en.wikipedia.org/wiki/Aeromonas_hydrophila Aeromonas hydrophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FML OCA].~~		</StructureSection>
	[[Category: Aeromonas hydrophila]]		[[Category: Aeromonas hydrophila]]
	[[Category: Kimber, M S.]]		[[Category: Kimber, M S]]
	[[Category: Merrill, A R.]]		[[Category: Merrill, A R]]
	[[Category: Ravulapalli, R.]]		[[Category: Ravulapalli, R]]
	[[Category: Transferase]]		[[Category: Transferase]]

OCA at 07:21, 2 January 2013

2013-01-02T07:21:23Z

← Older revision		Revision as of 07:21, 2 January 2013
Line 1:		Line 1:
	[[Image:4fml.~~jpg~~\|left\|200px]]		[[Image:4fml.png\|left\|200px]]

	{{STRUCTURE_4fml\| PDB=4fml \| SCENE= }}		{{STRUCTURE_4fml\| PDB=4fml \| SCENE= }}
Line 5:		Line 5:
	===Catalytic domain of VahC from Aeromonas hydrophila===		===Catalytic domain of VahC from Aeromonas hydrophila===

			{{ABSTRACT_PUBMED_22969084}}

	==About this Structure==		==About this Structure==

OCA at 07:22, 19 September 2012

2012-09-19T07:22:17Z

← Older revision		Revision as of 07:22, 19 September 2012
Line 1:		Line 1:
	~~'''Unreleased structure'''~~		[[Image:4fml.jpg\|left\|200px]]

	~~The entry~~ 4fml ~~is ON HOLD~~ ~~until Paper Publication~~		{{STRUCTURE_4fml\| PDB=4fml \| SCENE= }}

	~~Authors: Ravulapalli, R., Kimber, M.S., Merrill, A.R.~~		===Catalytic domain of VahC from Aeromonas hydrophila===

	~~Description~~: ~~Catalytic domain of VahC~~ from Aeromonas hydrophila
			==About this Structure==
			[[4fml]] is a 3 chain structure with sequence from [http://en.wikipedia.org/wiki/Aeromonas_hydrophila Aeromonas hydrophila]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=4FML OCA].
			[[Category: Aeromonas hydrophila]]
			[[Category: Kimber, M S.]]
			[[Category: Merrill, A R.]]
			[[Category: Ravulapalli, R.]]
			[[Category: Transferase]]

OCA at 04:49, 5 September 2012

2012-09-05T04:49:43Z

← Older revision		Revision as of 04:49, 5 September 2012
Line 1:		Line 1:
	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 4fml is ON HOLD		The entry 4fml is ON HOLD until Paper Publication

	Authors: Ravulapalli, R., Kimber, M.S., Merrill, A.R.		Authors: Ravulapalli, R., Kimber, M.S., Merrill, A.R.

	Description: Catalytic domain of VahC from Aeromonas hydrophila		Description: Catalytic domain of VahC from Aeromonas hydrophila

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

2012-06-27T05:26:57Z

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

← Older revision	Revision as of 05:26, 27 June 2012
(No difference)

OCA: New page: '''Unreleased structure''' The entry 4fml is ON HOLD Authors: Ravulapalli, R., Kimber, M.S., Merrill, A.R. Description: Catalytic domain of VahC from Aeromonas hydrophila

2012-06-27T05:26:56Z

New page: '''Unreleased structure''' The entry 4fml is ON HOLD Authors: Ravulapalli, R., Kimber, M.S., Merrill, A.R. Description: Catalytic domain of VahC from Aeromonas hydrophila

New page

'''Unreleased structure'''

The entry 4fml is ON HOLD

Authors: Ravulapalli, R., Kimber, M.S., Merrill, A.R.

Description: Catalytic domain of VahC from Aeromonas hydrophila