1s8l: Difference between revisions

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-[[Image:1s8l.jpg|left|200px]]
-<!--
-The line below this paragraph, containing "STRUCTURE_1s8l", 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.
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-{{STRUCTURE_1s8l|  PDB=1s8l  |  SCENE=  }}
-'''Anion-free form of the D85S mutant of bacteriorhodopsin from crystals grown in the presence of halide'''
+==Anion-free form of the D85S mutant of bacteriorhodopsin from crystals grown in the presence of halide==
+<StructureSection load='1s8l' size='340' side='right'caption='[[1s8l]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[1s8l]] 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=1S8L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1S8L 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]] 2.3&#8491;</td></tr>
+<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=RET:RETINAL'>RET</scene></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=1s8l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1s8l OCA], [https://pdbe.org/1s8l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1s8l RCSB], [https://www.ebi.ac.uk/pdbsum/1s8l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1s8l ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/BACR_HALSA BACR_HALSA] Light-driven proton pump.
+== 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/s8/1s8l_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/main_output.php?pdb_ID=1s8l ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+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.
-==Overview==
+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>
-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.
-==About this Structure==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-S8L is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Halobacterium_sp. Halobacterium sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1S8L OCA].
+</div>
+<div class="pdbe-citations 1s8l" style="background-color:#fffaf0;"></div>
-==Reference==
+==See Also==
-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://www.ncbi.nlm.nih.gov/pubmed/15109251 15109251]
+*[[Bacteriorhodopsin 3D structures|Bacteriorhodopsin 3D structures]]
-[[Category: Halobacterium sp.]]
+== References ==
-[[Category: Single protein]]
+<references/>
-[[Category: Baliga, N S.]]
+__TOC__
-[[Category: Cheung, V S.]]
+</StructureSection>
-[[Category: Facciotti, M T.]]
+[[Category: Halobacterium sp]]
-[[Category: Glaeser, R M.]]
+[[Category: Large Structures]]
-[[Category: Lunde, C S.]]
+[[Category: Baliga NS]]
-[[Category: Rouhani, S.]]
+[[Category: Cheung VS]]
-[[Category: Anion]]
+[[Category: Facciotti MT]]
-[[Category: Bacteriorhodopsin]]
+[[Category: Glaeser RM]]
-[[Category: Pump]]
+[[Category: Lunde CS]]
-[[Category: X-ray crystallography]]
+[[Category: Rouhani S]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 08:25:59 2008''