2b4l: Difference between revisions

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-[[Image:2b4l.gif|left|200px]]
-<!--
+==Crystal structure of the binding protein OpuAC in complex with glycine betaine==
-The line below this paragraph, containing "STRUCTURE_2b4l", creates the "Structure Box" on the page.
+<StructureSection load='2b4l' size='340' side='right'caption='[[2b4l]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
-You may change the PDB parameter (which sets the PDB file loaded into the applet)
+== Structural highlights ==
-or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
+<table><tr><td colspan='2'>[[2b4l]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2B4L FirstGlance]. <br>
-or leave the SCENE parameter empty for the default display.
+</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&#8491;</td></tr>
--->
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BET:TRIMETHYL+GLYCINE'>BET</scene>, <scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene></td></tr>
-{{STRUCTURE_2b4l|  PDB=2b4l  |  SCENE=  }}
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2b4l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2b4l OCA], [https://pdbe.org/2b4l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2b4l RCSB], [https://www.ebi.ac.uk/pdbsum/2b4l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2b4l ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/OPUAC_BACSU OPUAC_BACSU] Involved in a multicomponent binding-protein-dependent transport system for glycine betaine.<ref>PMID:7622480</ref> <ref>PMID:8752321</ref>
+== 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/b4/2b4l_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=2b4l ConSurf].
+<div style="clear:both"></div>
-'''Crystal structure of the binding protein OpuAC in complex with glycine betaine'''
+==See Also==
+*[[ABC transporter 3D structures|ABC transporter 3D structures]]
+== References ==
-==Overview==
+<references/>
-Compatible solutes play a decisive role in the defense of microorganisms against changes in temperature and increases in osmolarity in their natural habitats. In Bacillus subtilis, the substrate-binding protein (SBP)-dependent ABC-transporter OpuA serves for the uptake of the compatible solutes glycine betaine (GB) and proline betaine (PB). Here, we report the determinants of compatible solute binding by OpuAC, the SBP of the OpuA transporter, by equilibrium binding studies and X-ray crystallography. The affinity of OpuAC/GB and OpuAC/PB complexes were analyzed by intrinsic tryptophan fluorescence and the K(D) values were determined to be 17(+/-1)microM for GB and 295(+/-27)microM for PB, respectively. The structures of OpuAC in complex with GB or PB were solved at 2.0 A and 2.8 A, respectively, and show an SBP-typical class II fold. The ligand-binding pocket is formed by three tryptophan residues arranged in a prism-like geometry suitable to coordinate the positive charge of the trimethyl ammonium group of GB and the dimethyl ammonium group of PB by cation-pi interactions and by hydrogen bonds with the carboxylate moiety of the ligand. Structural differences between the OpuAC/GB and OpuAC/PB complexes occur within the ligand-binding pocket as well as across the domain-domain interface. These differences provide a structural framework to explain the drastic differences in affinity of the OpuAC/GB and OpuAC/PB complexes. A sequence comparison with putative SBP specific for compatible solutes reveals the presence of three distinct families for which the crystal structure of OpuAC might serve as a suitable template to predict the structures of these putative compatible solute-binding proteins.
+__TOC__
+</StructureSection>
-==About this Structure==
-B4L is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Bacillus_subtilis Bacillus subtilis]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2B4L OCA].
-==Reference==
-Molecular determinants for substrate specificity of the ligand-binding protein OpuAC from Bacillus subtilis for the compatible solutes glycine betaine and proline betaine., Horn C, Sohn-Bosser L, Breed J, Welte W, Schmitt L, Bremer E, J Mol Biol. 2006 Mar 24;357(2):592-606. Epub 2006 Jan 13. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16445940 16445940]
 [[Category: Bacillus subtilis]]
-[[Category: Single protein]]
+[[Category: Large Structures]]
-[[Category: Breed, J.]]
+[[Category: Breed J]]
-[[Category: Bremer, E.]]
+[[Category: Bremer E]]
-[[Category: Horn, C.]]
+[[Category: Horn C]]
-[[Category: Schmitt, L.]]
+[[Category: Schmitt L]]
-[[Category: Sohn-Boesser, L.]]
+[[Category: Sohn-Boesser L]]
-[[Category: Welte, W.]]
+[[Category: Welte W]]
-[[Category: Abc-transporter]]
-[[Category: Closed liganded]]
-[[Category: Compatible solute]]
-[[Category: Substrate-binding protein]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 19:50:53 2008''