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1xs9

From Proteopedia

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[[Image:1xs9.png|left|200px]]
 
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{{STRUCTURE_1xs9| PDB=1xs9 | SCENE= }}
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==A MODEL OF THE TERNARY COMPLEX FORMED BETWEEN MARA, THE ALPHA-CTD OF RNA POLYMERASE AND DNA==
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<StructureSection load='1xs9' size='340' side='right'caption='[[1xs9]]' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1xs9]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1ti9 1ti9]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XS9 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XS9 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">Solution NMR</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=1xs9 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xs9 OCA], [https://pdbe.org/1xs9 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xs9 RCSB], [https://www.ebi.ac.uk/pdbsum/1xs9 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xs9 ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/MARA_ECOLI MARA_ECOLI] May be a transcriptional activator of genes involved in the multiple antibiotic resistance (Mar) phenotype. It can also activate genes such as sodA, zwf and micF.
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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/xs/1xs9_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=1xs9 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 transcriptional activator, MarA, interacts with RNA polymerase (RNAP) to activate promoters of the mar regulon. Here, we identify the interacting surfaces of MarA and of the carboxy-terminal domain of the alpha subunit of RNAP (alpha-CTD) by NMR-based chemical shift mapping. Spectral changes were monitored for a MarA-DNA complex upon titration with alpha-CTD, and for alpha-CTD upon titration with MarA-DNA. The mapping results were confirmed by mutational studies and retention chromatography. A model of the ternary complex shows that alpha-CTD uses a '265-like determinant' to contact MarA at a surface distant from the DNA. This is unlike the interaction of alpha-CTD with the CRP or Fis activators where the '265 determinant' contacts DNA while another surface of the same alpha-CTD molecule contacts the activator. These results reveal a new versatility for alpha-CTD in transcriptional activation.
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===A MODEL OF THE TERNARY COMPLEX FORMED BETWEEN MARA, THE ALPHA-CTD OF RNA POLYMERASE AND DNA===
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Versatility of the carboxy-terminal domain of the alpha subunit of RNA polymerase in transcriptional activation: use of the DNA contact site as a protein contact site for MarA.,Dangi B, Gronenborn AM, Rosner JL, Martin RG Mol Microbiol. 2004 Oct;54(1):45-59. PMID:15458404<ref>PMID:15458404</ref>
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{{ABSTRACT_PUBMED_15458404}}
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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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==About this Structure==
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<div class="pdbe-citations 1xs9" style="background-color:#fffaf0;"></div>
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[[1xs9]] is a 4 chain structure of [[RNA polymerase]] with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1ti9 1ti9]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XS9 OCA].
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==See Also==
==See Also==
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*[[RNA polymerase|RNA polymerase]]
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*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
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== References ==
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==Reference==
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<references/>
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<ref group="xtra">PMID:015458404</ref><references group="xtra"/>
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__TOC__
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[[Category: DNA-directed RNA polymerase]]
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</StructureSection>
[[Category: Escherichia coli]]
[[Category: Escherichia coli]]
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[[Category: Dangi, B.]]
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[[Category: Large Structures]]
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[[Category: Gronenborn, A M.]]
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[[Category: Dangi B]]
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[[Category: Martin, R G.]]
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[[Category: Gronenborn AM]]
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[[Category: Rosner, J L.]]
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[[Category: Martin RG]]
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[[Category: Mara]]
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[[Category: Rosner JL]]
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[[Category: Protein-dna complex]]
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[[Category: Rna polymerase]]
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[[Category: Ternary complex]]
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[[Category: Transcription-dna complex]]
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Current revision

A MODEL OF THE TERNARY COMPLEX FORMED BETWEEN MARA, THE ALPHA-CTD OF RNA POLYMERASE AND DNA

PDB ID 1xs9

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