3eeb - Revision history

OCA at 09:47, 21 February 2024

2024-02-21T09:47:04Z

← Older revision		Revision as of 09:47, 21 February 2024
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	<StructureSection load='3eeb' size='340' side='right'caption='[[3eeb]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='3eeb' size='340' side='right'caption='[[3eeb]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3eeb]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/~~"bacillo_virgola_del_koch"_trevisan_1884 "bacillo virgola del koch" trevisan 1884~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=3EEB FirstGlance]. <br>		<table><tr><td colspan='2'>[[3eeb]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3EEB FirstGlance]. <br>
	</td></tr><tr id='~~ligand~~'><td class="sblockLbl"><b>[[~~Ligand~~\|~~Ligands~~:]]</b></td><td class="sblockDat" id="~~ligandDat~~">~~<scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>~~, ~~<scene name='pdbligand=NA:SODIUM+ION'>NA</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]] 2.1Å</td></tr>
	<tr id='~~gene~~'><td class="sblockLbl"><b>[[~~Gene~~\|~~Gene~~:]]</b></td><td class="sblockDat">~~rtxA, vc1451 ([http~~:/~~/www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode~~=~~Info&srchmode~~=~~5&id=666 "Bacillo virgola del Koch" Trevisan 1884])~~</td></tr>		<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></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=3eeb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eeb OCA], [~~http~~://pdbe.org/3eeb PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=3eeb RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/3eeb PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=3eeb 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=3eeb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eeb OCA], [https://pdbe.org/3eeb PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3eeb RCSB], [https://www.ebi.ac.uk/pdbsum/3eeb PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3eeb ProSAT]</span></td></tr>
	</table>		</table>
			== Function ==
			[https://www.uniprot.org/uniprot/MARTX_VIBCH MARTX_VIBCH] Precursor of a multifunctional toxin that causes destruction of the actin cytoskeleton by covalent cross-linking of actin and inactivation of Rho GTPases when translocated into the host cytoplasm (PubMed:26185092). Upon translocation into the host cell, undergoes autoprocessing in cis mediated by the peptidase C80 domain (also named CPD domain): the protease activity is activated upon binding inositol hexakisphosphate (InsP6) present at the host cell membrane and delivers the Cysteine protease domain-containing toxin F3 chain to the host cytosol (PubMed:17464284, PubMed:18591243, PubMed:18845756, PubMed:19620709, PubMed:19465933). The Cysteine protease domain-containing toxin F3 chain will then further cleave and release effector toxin chains that cause disassembly of the actin cytoskeleton and enhance V.cholerae colonization of the small intestine, possibly by facilitating evasion of phagocytic cells (PubMed:11553575, PubMed:12045243, PubMed:17698573, PubMed:17698571, PubMed:19812690, PubMed:19620709).<ref>PMID:11553575</ref> <ref>PMID:12045243</ref> <ref>PMID:17464284</ref> <ref>PMID:18591243</ref> <ref>PMID:18845756</ref> <ref>PMID:19465933</ref> <ref>PMID:19620709</ref> <ref>PMID:19812690</ref> <ref>PMID:26185092</ref> Following autocatalytic cleavage in cis at the Leu-3441-Ala-3442 site, this chain mediates processing in trans to release other individual toxin chains to the host cytosol (PubMed:19620709). Released effector toxin chains cause disassembly of the actin cytoskeleton and enhance V.cholerae colonization of the small intestine, possibly by facilitating evasion of phagocytic cells (PubMed:17698573, PubMed:17698571).<ref>PMID:17698571</ref> <ref>PMID:17698573</ref> <ref>PMID:19620709</ref> Actin-directed toxin that catalyzes the covalent cross-linking of host cytoplasmic monomeric actin (PubMed:11032799, PubMed:15199181, PubMed:16954226, PubMed:17951576, PubMed:19015515, PubMed:19656298, PubMed:23029200, PubMed:26228148). Mediates the cross-link between 'Lys-50' of one monomer and 'Glu-270' of another actin monomer, resulting in formation of highly toxic actin oligomers that cause cell rounding (PubMed:19015515). The toxin can be highly efficient at very low concentrations by acting on formin homology family proteins: toxic actin oligomers bind with high affinity to formins and adversely affect both nucleation and elongation abilities of formins, causing their potent inhibition in both profilin-dependent and independent manners (PubMed:26228148). Acts as an acid--amino-acid ligase that transfers the gamma-phosphoryl group of ATP to the 'Glu-270' actin residue, resulting in the formation of an activated acyl phosphate intermediate. This intermediate is further hydrolyzed and the energy of hydrolysis is utilized for the formation of the amide bond between actin subunits (PubMed:23029200).<ref>PMID:11032799</ref> <ref>PMID:15199181</ref> <ref>PMID:16954226</ref> <ref>PMID:17951576</ref> <ref>PMID:19015515</ref> <ref>PMID:19656298</ref> <ref>PMID:23029200</ref> <ref>PMID:26228148</ref> Actin-directed toxin that catalyzes the covalent cross-linking of host cytoplasmic monomeric actin (PubMed:11032799, PubMed:15199181, PubMed:16954226, PubMed:17951576, PubMed:19015515, PubMed:19656298, PubMed:23029200, PubMed:26228148). Mediates the cross-link between 'Lys-50' of one monomer and 'Glu-270' of another actin monomer, resulting in formation of highly toxic actin oligomers that cause cell rounding (PubMed:19015515). The toxin can be highly efficient at very low concentrations by acting on formin homology family proteins: toxic actin oligomers bind with high affinity to formins and adversely affect both nucleation and elongation abilities of formins, causing their potent inhibition in both profilin-dependent and independent manners (PubMed:26228148). Acts as an acid--amino-acid ligase that transfers the gamma-phosphoryl group of ATP to the 'Glu-270' actin residue, resulting in the formation of an activated acyl phosphate intermediate. This intermediate is further hydrolyzed and the energy of hydrolysis is utilized for the formation of the amide bond between actin subunits (PubMed:23029200).<ref>PMID:11032799</ref> <ref>PMID:15199181</ref> <ref>PMID:16954226</ref> <ref>PMID:17951576</ref> <ref>PMID:19015515</ref> <ref>PMID:19656298</ref> <ref>PMID:23029200</ref> <ref>PMID:26228148</ref> N-epsilon-fatty acyltransferase that mediates lysine-palmitoylation of host Rho GTPase proteins, with a strong preference for host Rac1 (PubMed:29074776). After delivery to the host cytosol, localizes to the host cell membrane where it palmitoylates host Rho GTPase proteins, resulting in loss of all active GTP-bound Rho and subsequent actin depolymerization (PubMed:17474905, PubMed:19434753, PubMed:23184949, PubMed:29074776). Prenylation of host Rac1 at the C-terminus is required for lysine-palmitoylation (PubMed:29074776).<ref>PMID:17474905</ref> <ref>PMID:19434753</ref> <ref>PMID:23184949</ref> <ref>PMID:29074776</ref> Indirectly activates the small GTPase CDC42.<ref>PMID:25427654</ref>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
	[[Image:Consurf_key_small.gif\|200px\|right]]		[[Image:Consurf_key_small.gif\|200px\|right]]
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	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3eeb ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3eeb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	~~<div style="background-color:#fffaf0;">~~
	~~== Publication Abstract from PubMed ==~~
	Vibrio cholerae RTX (repeats in toxin) is an actin-disrupting toxin that is autoprocessed by an internal cysteine protease domain (CPD). The RTX CPD is efficiently activated by the eukaryote-specific small molecule inositol hexakisphosphate (InsP6), and we present the 2.1 angstrom structure of the RTX CPD in complex with InsP6. InsP6 binds to a conserved basic cleft that is distant from the protease active site. Biochemical and kinetic analyses of CPD mutants indicate that InsP6 binding induces an allosteric switch that leads to the autoprocessing and intracellular release of toxin-effector domains.

	Small molecule-induced allosteric activation of the Vibrio cholerae RTX cysteine protease domain.,Lupardus PJ, Shen A, Bogyo M, Garcia KC Science. 2008 Oct 10;322(5899):265-8. PMID:18845756<ref>PMID:18845756</ref>

	~~From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>~~
	~~</div>~~
	~~<div class="pdbe-citations 3eeb" style="background-color:#fffaf0;"></div>~~
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	~~[[Category: Bacillo virgola del koch trevisan 1884]]~~
	[[Category: Large Structures]]		[[Category: Large Structures]]
	[[Category: ~~Bogyo, M~~]]		[[Category: Vibrio cholerae]]
	[[Category: ~~Garcia, K C~~]]		[[Category: Bogyo M]]
	[[Category: ~~Lupardus, P J~~]]		[[Category: Garcia KC]]
	[[Category: ~~Shen, A~~]]		[[Category: Lupardus PJ]]
	[[Category: ~~Cysteine protease]]~~		[[Category: Shen A]]
	~~[[Category: Inositol hexakisphosphate]]~~
	~~[[Category: Martx]]~~
	~~[[Category: Repeats-in-toxin]]~~
	~~[[Category: Rtx]]~~
	~~[[Category: Toxin]]~~
	~~[[Category: V. cholerae~~]]

OCA at 05:55, 14 October 2020

2020-10-14T05:55:22Z

← Older revision		Revision as of 05:55, 14 October 2020
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	==Structure of the V. cholerae RTX cysteine protease domain==		==Structure of the V. cholerae RTX cysteine protease domain==
	<StructureSection load='3eeb' size='340' side='right' caption='[[3eeb]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='3eeb' size='340' side='right'caption='[[3eeb]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3eeb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillo_virgola_del_koch"_trevisan_1884 "bacillo virgola del koch" trevisan 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=3EEB FirstGlance]. <br>		<table><tr><td colspan='2'>[[3eeb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillo_virgola_del_koch"_trevisan_1884 "bacillo virgola del koch" trevisan 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3EEB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rtxA, vc1451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=666 "Bacillo virgola del Koch" Trevisan 1884])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rtxA, vc1451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=666 "Bacillo virgola del Koch" Trevisan 1884])</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=3eeb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eeb OCA], [http://pdbe.org/3eeb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3eeb RCSB], [http://www.ebi.ac.uk/pdbsum/3eeb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3eeb 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=3eeb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eeb OCA], [http://pdbe.org/3eeb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3eeb RCSB], [http://www.ebi.ac.uk/pdbsum/3eeb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3eeb ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	</StructureSection>		</StructureSection>
	[[Category: Bacillo virgola del koch trevisan 1884]]		[[Category: Bacillo virgola del koch trevisan 1884]]
			[[Category: Large Structures]]
	[[Category: Bogyo, M]]		[[Category: Bogyo, M]]
	[[Category: Garcia, K C]]		[[Category: Garcia, K C]]

OCA at 21:42, 2 December 2018

2018-12-02T21:42:43Z

← Older revision		Revision as of 21:42, 2 December 2018
Line 1:		Line 1:

	==Structure of the V. cholerae RTX cysteine protease domain==		==Structure of the V. cholerae RTX cysteine protease domain==
	<StructureSection load='3eeb' size='340' side='right' caption='[[3eeb]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='3eeb' size='340' side='right' caption='[[3eeb]], [[Resolution\|resolution]] 2.10Å' scene=''>
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	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rtxA, vc1451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=666 "Bacillo virgola del Koch" Trevisan 1884])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rtxA, vc1451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=666 "Bacillo virgola del Koch" Trevisan 1884])</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=3eeb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eeb OCA], [http://pdbe.org/3eeb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3eeb RCSB], [http://www.ebi.ac.uk/pdbsum/3eeb 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=3eeb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eeb OCA], [http://pdbe.org/3eeb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3eeb RCSB], [http://www.ebi.ac.uk/pdbsum/3eeb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3eeb ProSAT]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
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	Check<jmol>		Check<jmol>
	<jmolCheckbox>		<jmolCheckbox>
	<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ee/3eeb_consurf.spt"</scriptWhenChecked>		<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ee/3eeb_consurf.spt"</scriptWhenChecked>
	<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>		<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>

OCA at 04:14, 8 February 2016

2016-02-08T04:14:42Z

← Older revision		Revision as of 04:14, 8 February 2016
Line 2:		Line 2:
	<StructureSection load='3eeb' size='340' side='right' caption='[[3eeb]], [[Resolution\|resolution]] 2.10Å' scene=''>		<StructureSection load='3eeb' size='340' side='right' caption='[[3eeb]], [[Resolution\|resolution]] 2.10Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
	<table><tr><td colspan='2'>[[3eeb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Vibrio_cholerae Vibrio cholerae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EEB FirstGlance]. <br>		<table><tr><td colspan='2'>[[3eeb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillo_virgola_del_koch"_trevisan_1884 "bacillo virgola del koch" trevisan 1884]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EEB FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
	<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rtxA, vc1451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=666 ~~Vibrio cholerae~~])</td></tr>		<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rtxA, vc1451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=666 "Bacillo virgola del Koch" Trevisan 1884])</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=3eeb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eeb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3eeb RCSB], [http://www.ebi.ac.uk/pdbsum/3eeb 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=3eeb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eeb OCA], [http://pdbe.org/3eeb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3eeb RCSB], [http://www.ebi.ac.uk/pdbsum/3eeb PDBsum]</span></td></tr>
	</table>		</table>
	== Evolutionary Conservation ==		== Evolutionary Conservation ==
Line 15:		Line 15:
	<text>to colour the structure by Evolutionary Conservation</text>		<text>to colour the structure by Evolutionary Conservation</text>
	</jmolCheckbox>		</jmolCheckbox>
	</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/~~chain_selection~~.php?pdb_ID=~~2ata~~ ConSurf].		</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3eeb ConSurf].
	<div style="clear:both"></div>		<div style="clear:both"></div>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
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	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 3eeb" style="background-color:#fffaf0;"></div>
	== References ==		== References ==
	<references/>		<references/>
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
	[[Category: ~~Vibrio cholerae~~]]		[[Category: Bacillo virgola del koch trevisan 1884]]
	[[Category: Bogyo, M]]		[[Category: Bogyo, M]]
	[[Category: Garcia, K C]]		[[Category: Garcia, K C]]

OCA at 13:34, 19 November 2014

2014-11-19T13:34:48Z

← Older revision		Revision as of 13:34, 19 November 2014
Line 1:		Line 1:
	[[Image:~~3eeb~~.~~png~~\|~~left~~\|~~200px~~]]		==Structure of the V. cholerae RTX cysteine protease domain==
			<StructureSection load='3eeb' size='340' side='right' caption='[[3eeb]], [[Resolution\|resolution]] 2.10Å' scene=''>
			== Structural highlights ==
			<table><tr><td colspan='2'>[[3eeb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3EEB FirstGlance]. <br>
			</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=IHP:INOSITOL+HEXAKISPHOSPHATE'>IHP</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
			<tr id='gene'><td class="sblockLbl"><b>[[Gene\|Gene:]]</b></td><td class="sblockDat">rtxA, vc1451 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=666 Vibrio cholerae])</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=3eeb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3eeb OCA], [http://www.rcsb.org/pdb/explore.do?structureId=3eeb RCSB], [http://www.ebi.ac.uk/pdbsum/3eeb PDBsum]</span></td></tr>
			</table>
			== Evolutionary Conservation ==
			[[Image:Consurf_key_small.gif\|200px\|right]]
			Check<jmol>
			<jmolCheckbox>
			<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ee/3eeb_consurf.spt"</scriptWhenChecked>
			<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
			<text>to colour the structure by Evolutionary Conservation</text>
			</jmolCheckbox>
			</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary\|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/chain_selection.php?pdb_ID=2ata ConSurf].
			<div style="clear:both"></div>
			<div style="background-color:#fffaf0;">
			== Publication Abstract from PubMed ==
			Vibrio cholerae RTX (repeats in toxin) is an actin-disrupting toxin that is autoprocessed by an internal cysteine protease domain (CPD). The RTX CPD is efficiently activated by the eukaryote-specific small molecule inositol hexakisphosphate (InsP6), and we present the 2.1 angstrom structure of the RTX CPD in complex with InsP6. InsP6 binds to a conserved basic cleft that is distant from the protease active site. Biochemical and kinetic analyses of CPD mutants indicate that InsP6 binding induces an allosteric switch that leads to the autoprocessing and intracellular release of toxin-effector domains.

	~~{{STRUCTURE_3eeb\| PDB=3eeb \| SCENE= }}~~		Small molecule-induced allosteric activation of the Vibrio cholerae RTX cysteine protease domain.,Lupardus PJ, Shen A, Bogyo M, Garcia KC Science. 2008 Oct 10;322(5899):265-8. PMID:18845756<ref>PMID:18845756</ref>

	~~===Structure~~ of the V. ~~cholerae RTX cysteine protease domain===~~		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
			</div>
	~~{{ABSTRACT_PUBMED_18845756}}~~		== References ==
			<references/>
	~~==About this Structure==~~		__TOC__
	~~[[3eeb]] is a 2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org~~/~~wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA].~~		</StructureSection>

	==~~Reference~~==
	<~~ref group="xtra">PMID:018845756<~~/~~ref~~><~~ref group="xtra">PMID:019465933</ref><references group="xtra"~~/>
	[[Category: Vibrio cholerae]]		[[Category: Vibrio cholerae]]
	[[Category: Bogyo, M.]]		[[Category: Bogyo, M]]
	[[Category: Garcia, K C.]]		[[Category: Garcia, K C]]
	[[Category: Lupardus, P J.]]		[[Category: Lupardus, P J]]
	[[Category: Shen, A.]]		[[Category: Shen, A]]
	[[Category: Cysteine protease]]		[[Category: Cysteine protease]]
	[[Category: Inositol hexakisphosphate]]		[[Category: Inositol hexakisphosphate]]

OCA: Protected "3eeb" [edit=sysop:move=sysop]

2013-01-09T09:02:53Z

Protected "3eeb" [edit=sysop:move=sysop]

← Older revision	Revision as of 09:02, 9 January 2013
(No difference)

OCA at 09:02, 9 January 2013

2013-01-09T09:02:51Z

← Older revision		Revision as of 09:02, 9 January 2013
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	~~{{Seed}}~~
	[[Image:3eeb.png\|left\|200px]]		[[Image:3eeb.png\|left\|200px]]

	~~<!--~~
	~~The line below this paragraph, containing "STRUCTURE_3eeb", creates the "Structure Box" on the page.~~
	~~You may change the PDB parameter (which sets the PDB file loaded into the applet)~~
	~~or the SCENE parameter (which sets the initial scene displayed when the page is loaded),~~
	~~or leave the SCENE parameter empty for the default display.~~
	~~-->~~
	{{STRUCTURE_3eeb\| PDB=3eeb \| SCENE= }}		{{STRUCTURE_3eeb\| PDB=3eeb \| SCENE= }}

	===Structure of the V. cholerae RTX cysteine protease domain===		===Structure of the V. cholerae RTX cysteine protease domain===


	~~<!--~~
	~~The line below this paragraph, {{ABSTRACT_PUBMED_18845756}}, adds the Publication Abstract to the page~~
	~~(as it appears on PubMed at http://www.pubmed.gov), where 18845756 is the PubMed ID number.~~
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	{{ABSTRACT_PUBMED_18845756}}		{{ABSTRACT_PUBMED_18845756}}

	==About this Structure==		==About this Structure==
	~~3EEB~~ is a 2 ~~chains~~ structure ~~of sequences~~ from [http://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA].		[[3eeb]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA].

	==Reference==		==Reference==
	<ref group="xtra">PMID:~~18845756~~</ref><references group="xtra"/>		<ref group="xtra">PMID:018845756</ref><ref group="xtra">PMID:019465933</ref><references group="xtra"/>
	[[Category: Vibrio cholerae]]		[[Category: Vibrio cholerae]]
	[[Category: Bogyo, M.]]		[[Category: Bogyo, M.]]
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	[[Category: Repeats-in-toxin]]		[[Category: Repeats-in-toxin]]
	[[Category: Rtx]]		[[Category: Rtx]]
			[[Category: Toxin]]
	[[Category: V. cholerae]]		[[Category: V. cholerae]]

	~~''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 18:44:10 2009''~~

OCA at 16:44, 16 February 2009

2009-02-16T16:44:12Z

← Older revision		Revision as of 16:44, 16 February 2009
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	{{Seed}}		{{Seed}}
	[[Image:3eeb.~~jpg~~\|left\|200px]]		[[Image:3eeb.png\|left\|200px]]

	<!--		<!--
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	==About this Structure==		==About this Structure==
	3EEB is a ~~[[Single protein]]~~ structure of ~~sequence~~ from [http://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA].		3EEB is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Vibrio_cholerae Vibrio cholerae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3EEB OCA].

	==Reference==		==Reference==
	~~Small molecule-induced allosteric activation of the Vibrio cholerae RTX cysteine protease domain., Lupardus PJ, Shen A, Bogyo M, Garcia KC, Science. 2008 Oct 10;322(5899):265-8.~~ PMID:~~[http://www.ncbi.nlm.nih.gov~~/~~pubmed~~/~~18845756 18845756]~~		<ref group="xtra">PMID:18845756</ref><references group="xtra"/>
	~~[[Category: Single protein]]~~
	[[Category: Vibrio cholerae]]		[[Category: Vibrio cholerae]]
	[[Category: Bogyo, M.]]		[[Category: Bogyo, M.]]
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	[[Category: V. cholerae]]		[[Category: V. cholerae]]

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on ~~Wed Oct 22 10~~:53:~~42 2008~~''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Feb 16 18:44:10 2009''

OCA at 08:53, 22 October 2008

2008-10-22T08:53:43Z

@@ Line 1: / Line 1: @@
-'''Unreleased structure'''
+{{Seed}}
-The entry 3eeb is ON HOLD  until Paper Publication
+<!--
-Authors: Lupardus, P.J., Shen, A., Bogyo, M., Garcia, K.C.
+===Structure of the V. cholerae RTX cysteine protease domain===
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 17 13:41:22 2008''
+<!--

OCA at 10:41, 17 September 2008

2008-09-17T10:41:22Z

← Older revision		Revision as of 10:41, 17 September 2008
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	'''Unreleased structure'''		'''Unreleased structure'''

	The entry 3eeb is ON HOLD		The entry 3eeb is ON HOLD until Paper Publication

	Authors: Lupardus, P.J., Shen, A., Bogyo, M., Garcia, K.C.		Authors: Lupardus, P.J., Shen, A., Bogyo, M., Garcia, K.C.
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	Description: Structure of the V. cholerae RTX cysteine protease domain		Description: Structure of the V. cholerae RTX cysteine protease domain

	''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep ~~10 12~~:36:12 2008''		''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Sep 17 13:41:22 2008''