1s8j

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(New page: 200px<br /><applet load="1s8j" size="450" color="white" frame="true" align="right" spinBox="true" caption="1s8j, resolution 2.30&Aring;" /> '''Nitrate-bound D85S m...)
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[[Image:1s8j.jpg|left|200px]]<br /><applet load="1s8j" size="450" color="white" frame="true" align="right" spinBox="true"
 
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caption="1s8j, resolution 2.30&Aring;" />
 
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'''Nitrate-bound D85S mutant of bacteriorhodopsin'''<br />
 
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==Overview==
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==Nitrate-bound D85S mutant of bacteriorhodopsin==
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The structure of the D85S mutant of bacteriorhodopsin with a nitrate anion, bound in the Schiff base binding site and the structure of the anion-free, protein have been obtained in the same crystal form. Together with the, previously solved structures of this anion pump, in both the anion-free, state and bromide-bound state, these new structures provide insight into, how this mutant of bacteriorhodopsin is able to bind a variety of, different anions in the same binding pocket. The structural analysis, reveals that the main structural change that accommodates different anions, is the repositioning of the polar side chain of S85. On the basis of these, X-ray crystal structures, the prediction is then made that the D85S/D212N, double mutant might bind similar anions and do so over a broader pH range, than does the single mutant. Experimental comparison of the dissociation, constants, K(d), for a variety of anions confirms this prediction and, demonstrates, in addition, that the binding affinity is dramatically, improved by the D212N substitution.
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<StructureSection load='1s8j' size='340' side='right'caption='[[1s8j]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1s8j]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Halobacterium_sp. Halobacterium sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S8J OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S8J FirstGlance]. <br>
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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]] 2.3&#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=LI1:1-[2,6,10.14-TETRAMETHYL-HEXADECAN-16-YL]-2-[2,10,14-TRIMETHYLHEXADECAN-16-YL]GLYCEROL'>LI1</scene>, <scene name='pdbligand=NO3:NITRATE+ION'>NO3</scene>, <scene name='pdbligand=RET:RETINAL'>RET</scene></td></tr>
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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=1s8j FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s8j OCA], [https://pdbe.org/1s8j PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s8j RCSB], [https://www.ebi.ac.uk/pdbsum/1s8j PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s8j ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/BACR_HALSA BACR_HALSA] Light-driven proton pump.
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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/s8/1s8j_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=1s8j 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 structure of the D85S mutant of bacteriorhodopsin with a nitrate anion bound in the Schiff base binding site and the structure of the anion-free protein have been obtained in the same crystal form. Together with the previously solved structures of this anion pump, in both the anion-free state and bromide-bound state, these new structures provide insight into how this mutant of bacteriorhodopsin is able to bind a variety of different anions in the same binding pocket. The structural analysis reveals that the main structural change that accommodates different anions is the repositioning of the polar side chain of S85. On the basis of these X-ray crystal structures, the prediction is then made that the D85S/D212N double mutant might bind similar anions and do so over a broader pH range than does the single mutant. Experimental comparison of the dissociation constants, K(d), for a variety of anions confirms this prediction and demonstrates, in addition, that the binding affinity is dramatically improved by the D212N substitution.
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==About this Structure==
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Specificity of anion binding in the substrate pocket of bacteriorhodopsin.,Facciotti MT, Cheung VS, Lunde CS, Rouhani S, Baliga NS, Glaeser RM Biochemistry. 2004 May 4;43(17):4934-43. PMID:15109251<ref>PMID:15109251</ref>
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1S8J is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Halobacterium_sp. Halobacterium sp.] with NO3, RET and LI1 as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1S8J OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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Specificity of anion binding in the substrate pocket of bacteriorhodopsin., Facciotti MT, Cheung VS, Lunde CS, Rouhani S, Baliga NS, Glaeser RM, Biochemistry. 2004 May 4;43(17):4934-43. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=15109251 15109251]
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</div>
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[[Category: Halobacterium sp.]]
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<div class="pdbe-citations 1s8j" style="background-color:#fffaf0;"></div>
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[[Category: Single protein]]
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[[Category: Baliga, N.S.]]
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[[Category: Cheung, V.S.]]
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[[Category: Facciotti, M.T.]]
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[[Category: Glaeser, R.M.]]
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[[Category: Lunde, C.S.]]
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[[Category: Rouhani, S.]]
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[[Category: LI1]]
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[[Category: NO3]]
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[[Category: RET]]
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[[Category: anion]]
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[[Category: bacteriorhodopsin]]
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[[Category: pump]]
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[[Category: x-ray diffraction]]
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''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 02:12:23 2007''
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==See Also==
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*[[Bacteriorhodopsin 3D structures|Bacteriorhodopsin 3D structures]]
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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: Halobacterium sp]]
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[[Category: Large Structures]]
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[[Category: Baliga NS]]
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[[Category: Cheung VS]]
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[[Category: Facciotti MT]]
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[[Category: Glaeser RM]]
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[[Category: Lunde CS]]
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[[Category: Rouhani S]]

Current revision

Nitrate-bound D85S mutant of bacteriorhodopsin

PDB ID 1s8j

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