3a57: Difference between revisions
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==Crystal structure of Thermostable Direct Hemolysin== | |||
<StructureSection load='3a57' size='340' side='right'caption='[[3a57]], [[Resolution|resolution]] 1.50Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[3a57]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Vibrio_parahaemolyticus Vibrio parahaemolyticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3A57 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3A57 FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.5Å</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=3a57 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3a57 OCA], [https://pdbe.org/3a57 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3a57 RCSB], [https://www.ebi.ac.uk/pdbsum/3a57 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3a57 ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/HLY2_VIBPA HLY2_VIBPA] Bacterial hemolysins are exotoxins that attack blood cell membranes and cause cell rupture by mechanisms not clearly defined. | |||
== 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/a5/3a57_consurf.spt"</scriptWhenChecked> | |||
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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/main_output.php?pdb_ID=3a57 ConSurf]. | |||
<div style="clear:both"></div> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Thermostable direct hemolysin (TDH) is a major virulence factor of Vibrio parahaemolyticus that causes pandemic foodborne enterocolitis mediated by seafood. TDH exists as a tetramer in solution, and it possesses extreme hemolytic activity. Here, we present the crystal structure of the TDH tetramer at 1.5 A resolution. The TDH tetramer forms a central pore with dimensions of 23 A in diameter and approximately 50 A in depth. Pi-cation interactions between protomers comprising the tetramer were indispensable for hemolytic activity of TDH. The N-terminal region was intrinsically disordered outside of the pore. Molecular dynamic simulations suggested that water molecules permeate freely through the central and side channel pores. Electron micrographs showed that tetrameric TDH attached to liposomes, and some of the tetramer associated with liposome via one protomer. These findings imply a novel membrane attachment mechanism by a soluble tetrameric pore-forming toxin. | |||
Structure and functional characterization of Vibrio parahaemolyticus thermostable direct hemolysin.,Yanagihara I, Nakahira K, Yamane T, Kaieda S, Mayanagi K, Hamada D, Fukui T, Ohnishi K, Kajiyama S, Shimizu T, Sato M, Ikegami T, Ikeguchi M, Honda T, Hashimoto H J Biol Chem. 2010 May 21;285(21):16267-74. Epub 2010 Mar 24. PMID:20335168<ref>PMID:20335168</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
</div> | |||
<div class="pdbe-citations 3a57" style="background-color:#fffaf0;"></div> | |||
==See Also== | ==See Also== | ||
*[[Hemolysin|Hemolysin]] | *[[Hemolysin 3D structures|Hemolysin 3D structures]] | ||
== References == | |||
== | <references/> | ||
< | __TOC__ | ||
</StructureSection> | |||
[[Category: Large Structures]] | |||
[[Category: Vibrio parahaemolyticus]] | [[Category: Vibrio parahaemolyticus]] | ||
[[Category: Fukui | [[Category: Fukui T]] | ||
[[Category: Hamada | [[Category: Hamada D]] | ||
[[Category: Hashimoto | [[Category: Hashimoto H]] | ||
[[Category: Honda | [[Category: Honda T]] | ||
[[Category: Ikegami | [[Category: Ikegami T]] | ||
[[Category: Ikeguchi | [[Category: Ikeguchi M]] | ||
[[Category: Kaieda | [[Category: Kaieda S]] | ||
[[Category: Kajiyama | [[Category: Kajiyama S]] | ||
[[Category: Mayanagi | [[Category: Mayanagi K]] | ||
[[Category: Nakahira | [[Category: Nakahira K]] | ||
[[Category: Ohnishi | [[Category: Ohnishi K]] | ||
[[Category: Sato | [[Category: Sato M]] | ||
[[Category: Shimizu | [[Category: Shimizu T]] | ||
[[Category: Yamane | [[Category: Yamane T]] | ||
[[Category: Yanagihara | [[Category: Yanagihara I]] | ||
Latest revision as of 08:39, 17 October 2024
Crystal structure of Thermostable Direct HemolysinCrystal structure of Thermostable Direct Hemolysin
Structural highlights
FunctionHLY2_VIBPA Bacterial hemolysins are exotoxins that attack blood cell membranes and cause cell rupture by mechanisms not clearly defined. Evolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMedThermostable direct hemolysin (TDH) is a major virulence factor of Vibrio parahaemolyticus that causes pandemic foodborne enterocolitis mediated by seafood. TDH exists as a tetramer in solution, and it possesses extreme hemolytic activity. Here, we present the crystal structure of the TDH tetramer at 1.5 A resolution. The TDH tetramer forms a central pore with dimensions of 23 A in diameter and approximately 50 A in depth. Pi-cation interactions between protomers comprising the tetramer were indispensable for hemolytic activity of TDH. The N-terminal region was intrinsically disordered outside of the pore. Molecular dynamic simulations suggested that water molecules permeate freely through the central and side channel pores. Electron micrographs showed that tetrameric TDH attached to liposomes, and some of the tetramer associated with liposome via one protomer. These findings imply a novel membrane attachment mechanism by a soluble tetrameric pore-forming toxin. Structure and functional characterization of Vibrio parahaemolyticus thermostable direct hemolysin.,Yanagihara I, Nakahira K, Yamane T, Kaieda S, Mayanagi K, Hamada D, Fukui T, Ohnishi K, Kajiyama S, Shimizu T, Sato M, Ikegami T, Ikeguchi M, Honda T, Hashimoto H J Biol Chem. 2010 May 21;285(21):16267-74. Epub 2010 Mar 24. PMID:20335168[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. See AlsoReferences
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