2i68: Difference between revisions

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 ==Cryo-EM based theoretical model structure of transmembrane domain of the multidrug-resistance antiporter from E. coli EmrE==
-<StructureSection load='2i68' size='340' side='right' caption='[[2i68]]' scene=''>
+<StructureSection load='2i68' size='340' side='right'caption='[[2i68]], [[Resolution|resolution]] 7.50&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2i68]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2I68 OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2I68 FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2i68]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2I68 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2I68 FirstGlance]. <br>
-</td></tr><tr><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">emrE, EB, mvrC ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=562 Escherichia coli])</td></tr>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron crystallography, [[Resolution|Resolution]] 7.5&#8491;</td></tr>
-<tr><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2i68 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2i68 OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2i68 RCSB], [http://www.ebi.ac.uk/pdbsum/2i68 PDBsum]</span></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=2i68 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2i68 OCA], [https://pdbe.org/2i68 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2i68 RCSB], [https://www.ebi.ac.uk/pdbsum/2i68 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2i68 ProSAT]</span></td></tr>
-<table>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/EMRE_ECOLI EMRE_ECOLI] Multidrug transporter that expels positively charged hydrophobic drugs across the inner membrane of E.coli., thereby conferring resistance to a wide range of toxic compounds. The drug efflux is coupled to an influx of protons. Is involved in the resistance of E.coli cells to methyl viologen, ethidium bromide and acriflavine. Is also able to transport tetraphenylphosphonium (TPP(+)) and benzalkonium.<ref>PMID:7896833</ref> <ref>PMID:10681497</ref> <ref>PMID:15371426</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/i6/2i68_consurf.spt"</scriptWhenChecked>
+     <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/i6/2i68_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/chain_selection.php?pdb_ID=2ata ConSurf].
+</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=2i68 ConSurf].
 <div style="clear:both"></div>
-<div style="background-color:#fffaf0;">
-== Publication Abstract from PubMed ==
-Small multidrug resistance (SMR) transporters contribute to bacterial resistance by coupling the efflux of a wide range of toxic aromatic cations, some of which are commonly used as antibiotics and antiseptics, to proton influx. EmrE is a prototypical small multidrug resistance transporter comprising four transmembrane segments (M1-M4) that forms dimers. It was suggested recently that EmrE molecules in the dimer have different topologies, i.e. monomers have opposite orientations with respect to the membrane plane. A 3-D structure of EmrE acquired by electron cryo-microscopy (cryo-EM) at 7.5 Angstroms resolution in the membrane plane showed that parts of the structure are related by quasi-symmetry. We used this symmetry relationship, combined with sequence conservation data, to assign the transmembrane segments in EmrE to the densities seen in the cryo-EM structure. A C alpha model of the transmembrane region was constructed by considering the evolutionary conservation pattern of each helix. The model is validated by much of the biochemical data on EmrE with most of the positions that were identified as affecting substrate translocation being located around the substrate-binding cavity. A suggested mechanism for proton-coupled substrate translocation in small multidrug resistance antiporters provides a mechanistic rationale to the experimentally observed inverted topology.
-Quasi-symmetry in the cryo-EM structure of EmrE provides the key to modeling its transmembrane domain.,Fleishman SJ, Harrington SE, Enosh A, Halperin D, Tate CG, Ben-Tal N J Mol Biol. 2006 Nov 17;364(1):54-67. Epub 2006 Aug 30. PMID:17005200<ref>PMID:17005200</ref>
-From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-</div>
 == References ==
 <references/>
@@ Line 29: / Line 24: @@
 </StructureSection>
 [[Category: Escherichia coli]]
-[[Category: Ben-Tal, N.]]
+[[Category: Large Structures]]
-[[Category: Enosh, A.]]
+[[Category: Ben-Tal N]]
-[[Category: Fleishman, S J.]]
+[[Category: Enosh A]]
-[[Category: Halperin, D.]]
+[[Category: Fleishman SJ]]
-[[Category: Harrington, S E.]]
+[[Category: Halperin D]]
-[[Category: Tate, C G.]]
+[[Category: Harrington SE]]
-[[Category: Dual topology]]
+[[Category: Tate CG]]
-[[Category: Homodimer]]
-[[Category: Small-multidrug resistance]]
-[[Category: Transmembrane protein]]
-[[Category: Transport protein]]
-[[Category: Transporter]]