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2job

From Proteopedia

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[[Image:2job.jpg|left|200px]]
 
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==Solution structure of an antilipopolysaccharide factor from shrimp and its possible Lipid A binding site==
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The line below this paragraph, containing "STRUCTURE_2job", creates the "Structure Box" on the page.
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<StructureSection load='2job' size='340' side='right'caption='[[2job]]' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2job]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Penaeus_monodon Penaeus monodon]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JOB OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2JOB FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
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-->
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2job FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2job OCA], [https://pdbe.org/2job PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2job RCSB], [https://www.ebi.ac.uk/pdbsum/2job PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2job ProSAT]</span></td></tr>
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{{STRUCTURE_2job| PDB=2job | SCENE= }}
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/A5A3I5_PENMO A5A3I5_PENMO]
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== Evolutionary Conservation ==
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[[Image:Consurf_key_small.gif|200px|right]]
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Check<jmol>
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<jmolCheckbox>
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/jo/2job_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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<text>to colour the structure by Evolutionary Conservation</text>
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</jmolCheckbox>
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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=2job ConSurf].
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<div style="clear:both"></div>
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<div style="background-color:#fffaf0;">
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== Publication Abstract from PubMed ==
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The anti-lipopolysaccharide factor ALF-Pm3 is a 98-residue protein identified in hemocytes from the black tiger shrimp Penaeus monodon. It was expressed in Pichia pastoris from the constitutive glyceraldehyde-3-phosphate dehydrogenase promoter as a folded and (15)N uniformly labeled rALF-Pm3 protein. Its 3D structure was established by NMR and consists of three alpha-helices packed against a four-stranded beta-sheet. The C(34)--C(55) disulfide bond was shown to be essential for the structure stability. By using surface plasmon resonance, we demonstrated that rALF-Pm3 binds to LPS, lipid A and to OM(R)-174, a soluble analogue of lipid A. Biophysical studies of rALF-Pm3/LPS and rALF-Pm3/OM(R)-174 complexes indicated rather high molecular sized aggregates, which prevented us to experimentally determine by NMR the binding mode of these lipids to rALF-Pm3. However, on the basis of striking structural similarities to the FhuA/LPS complex, we designed an original model of the possible lipid A-binding site of ALF-Pm3. Such a binding site, located on the ALF-Pm3 beta-sheet and involving seven charged residues, is well conserved in ALF-L from Limulus polyphemus and in ALF-T from Tachypleus tridentatus. In addition, our model is in agreement with experiments showing that beta-hairpin synthetic peptides corresponding to ALF-L beta-sheet bind to LPS. Delineating lipid A-binding site of ALFs will help go further in the de novo design of new antibacterial or LPS-neutralizing drugs. (c) 2008 Wiley Periodicals, Inc. Biopolymers 91: 207-220, 2009.This article was originally published online as an accepted preprint. The "Published Online" date corresponds to the preprint version. You can request a copy of the preprint by emailing the Biopolymers editorial office at biopolymers@wiley.com.
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'''Solution structure of an antilipopolysaccharide factor from shrimp and its possible Lipid A binding site'''
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NMR structure of rALF-Pm3, an anti-lipopolysaccharide factor from shrimp: Model of the possible lipid A-binding site.,Yang Y, Boze H, Chemardin P, Padilla A, Moulin G, Tassanakajon A, Pugniere M, Roquet F, Destoumieux-Garzon D, Gueguen Y, Bachere E, Aumelas A Biopolymers. 2009 Mar;91(3):207-20. PMID:19107926<ref>PMID:19107926</ref>
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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==About this Structure==
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</div>
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2JOB is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Penaeus_monodon Penaeus monodon]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JOB OCA].
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<div class="pdbe-citations 2job" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
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</StructureSection>
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[[Category: Large Structures]]
[[Category: Penaeus monodon]]
[[Category: Penaeus monodon]]
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[[Category: Single protein]]
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[[Category: Aumelas A]]
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[[Category: Aumelas, A.]]
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[[Category: Bachere E]]
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[[Category: Bachere, E.]]
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[[Category: Boze H]]
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[[Category: Boze, H.]]
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[[Category: Chemardin P]]
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[[Category: Chemardin, P.]]
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[[Category: Gueguen Y]]
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[[Category: Gueguen, Y.]]
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[[Category: Moulin G]]
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[[Category: Moulin, G.]]
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[[Category: Padilla A]]
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[[Category: Padilla, A.]]
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[[Category: Pugniere M]]
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[[Category: Pugniere, M.]]
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[[Category: Roquet F]]
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[[Category: Roquet, F.]]
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[[Category: Tassanakajon A]]
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[[Category: Tassanakajon, A.]]
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[[Category: Yang Y]]
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[[Category: Yang, Y.]]
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[[Category: Alf]]
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[[Category: Endotoxin]]
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[[Category: Lipid a binding protein]]
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[[Category: Lipid binding protein]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 09:06:25 2008''
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Current revision

Solution structure of an antilipopolysaccharide factor from shrimp and its possible Lipid A binding site

PDB ID 2job

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