2wyf

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[[Image:2wyf.png|left|200px]]
 
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==Crystal structure of PA-IL lectin complexed with aGal12bGal-O-Met at 2.4 A resolution==
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The line below this paragraph, containing "STRUCTURE_2wyf", creates the "Structure Box" on the page.
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<StructureSection load='2wyf' size='340' side='right'caption='[[2wyf]], [[Resolution|resolution]] 2.40&Aring;' 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'>[[2wyf]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_aeruginosa_PAO1 Pseudomonas aeruginosa PAO1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2WYF 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">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=GLA:ALPHA+D-GALACTOSE'>GLA</scene>, <scene name='pdbligand=MBG:METHYL-BETA-GALACTOSE'>MBG</scene></td></tr>
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{{STRUCTURE_2wyf| PDB=2wyf | SCENE= }}
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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=2wyf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2wyf OCA], [https://pdbe.org/2wyf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2wyf RCSB], [https://www.ebi.ac.uk/pdbsum/2wyf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2wyf ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/PA1L_PSEAE PA1L_PSEAE] D-galactose specific lectin. Binds in decreasing order of affinity: melibiose, methyl-alpha-D-galactoside, D-galactose, methyl-beta-D-galactoside, N-acetyl-D-galactosamine. Similar to plant lectins in its selective (carbohydrate-specific) hemagglutinating activity.
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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/wy/2wyf_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=2wyf 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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Calcium-dependent lectin I from Pseudomonas aeruginosa (PA-IL) binds specifically to oligosaccharides presenting an alpha-galactose residue at their nonreducing end, such as the disaccharides alphaGal1-2betaGalOMe, alphaGal1-3betaGalOMe, and alphaGal1-4betaGalOMe. This provides a unique model for studying the effect of the glycosidic linkage of the ligands on structure and thermodynamics of the complexes by means of experimental and theoretical tools. The structural features of PA-IL in complex with the three disaccharides were established by docking and molecular dynamics simulations and compared with those observed in available crystal structures, including PA-IL.alphaGal1-2betaGalOMe complex, which was solved at 2.4 A resolution and reported herein. The role of a structural bridge water molecule in the binding site of PA-IL was also elucidated through molecular dynamics simulations and free energy calculations. This water molecule establishes three very stable hydrogen bonds with O6 of nonreducing galactose, oxygen from Pro-51 main chain, and nitrogen from Gln-53 main chain of the lectin binding site. Binding free energies for PA-IL in complex with the three disaccharides were investigated, and the results were compared with the experimental data determined by titration microcalorimetry. When the bridge water molecule was included in the free energy calculations, the simulations predicted the correct binding affinity trends with the 1-2-linked disaccharide presenting three times stronger affinity ligand than the other two. These results highlight the role of the water molecule in the binding site of PA-IL and indicate that it should be taken into account when designing glycoderivatives active against P. aeruginosa adhesion.
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===CRYSTAL STRUCTURE OF PA-IL LECTIN COMPLEXED WITH AGAL12BGAL-O-MET AT 2.4 A RESOLUTION===
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Role of water molecules in structure and energetics of Pseudomonas aeruginosa lectin I interacting with disaccharides.,Nurisso A, Blanchard B, Audfray A, Rydner L, Oscarson S, Varrot A, Imberty A J Biol Chem. 2010 Jun 25;285(26):20316-27. Epub 2010 Apr 21. PMID:20410292<ref>PMID:20410292</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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</div>
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<div class="pdbe-citations 2wyf" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_20410292}}, adds the Publication Abstract to the page
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*[[Galactose-binding lectin|Galactose-binding lectin]]
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(as it appears on PubMed at http://www.pubmed.gov), where 20410292 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_20410292}}
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__TOC__
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</StructureSection>
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==About this Structure==
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[[Category: Large Structures]]
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[[2wyf]] is a 8 chain structure with sequence from [http://en.wikipedia.org/wiki/Pseudomonas_aeruginosa Pseudomonas aeruginosa]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2WYF OCA].
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[[Category: Pseudomonas aeruginosa PAO1]]
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[[Category: Blanchard B]]
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==Reference==
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[[Category: Imberty A]]
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<ref group="xtra">PMID:020410292</ref><references group="xtra"/>
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[[Category: Nurisso A]]
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[[Category: Pseudomonas aeruginosa]]
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[[Category: Varrot A]]
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[[Category: Blanchard, B.]]
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[[Category: Imberty, A.]]
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[[Category: Nurisso, A.]]
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[[Category: Varrot, A.]]
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[[Category: Lectin]]
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[[Category: Sugar binding protein]]
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Current revision

Crystal structure of PA-IL lectin complexed with aGal12bGal-O-Met at 2.4 A resolution

PDB ID 2wyf

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