2o9l: Difference between revisions

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[[Image:2o9l.jpg|left|200px]]


{{Structure
==AMBER refined NMR Structure of the Sigma-54 RpoN Domain Bound to the-24 Promoter Element==
|PDB= 2o9l |SIZE=350|CAPTION= <scene name='initialview01'>2o9l</scene>
<StructureSection load='2o9l' size='340' side='right'caption='[[2o9l]]' scene=''>
|SITE=  
== Structural highlights ==
|LIGAND=  
<table><tr><td colspan='2'>[[2o9l]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O9L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2O9L FirstGlance]. <br>
|ACTIVITY=  
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
|GENE= rpoN ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=63363 Aquifex aeolicus])
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2o9l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2o9l OCA], [https://pdbe.org/2o9l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2o9l RCSB], [https://www.ebi.ac.uk/pdbsum/2o9l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2o9l ProSAT]</span></td></tr>
}}
</table>
== Function ==
[https://www.uniprot.org/uniprot/O66858_AQUAE O66858_AQUAE]
== 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/o9/2o9l_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=2o9l ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The sigma subunit of bacterial RNA polymerase (RNAP) regulates gene expression by directing RNAP to specific promoters. Unlike sigma(70)-type proteins, the alternative sigma factor, sigma(54), requires interaction with an ATPase to open DNA. We present the solution structure of the C-terminal domain of sigma(54) bound to the -24 promoter element, in which the conserved RpoN box motif inserts into the major groove of the DNA. This structure elucidates the basis for sequence specific recognition of the -24 element, orients sigma(54) on the promoter, and suggests how the C-terminal domain of sigma(54) interacts with RNAP.


'''AMBER refined NMR Structure of the Sigma-54 RpoN Domain Bound to the-24 Promoter Element'''
Structural basis of DNA recognition by the alternative sigma-factor, sigma54.,Doucleff M, Pelton JG, Lee PS, Nixon BT, Wemmer DE J Mol Biol. 2007 Jun 15;369(4):1070-8. Epub 2007 Apr 12. PMID:17481658<ref>PMID:17481658</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 2o9l" style="background-color:#fffaf0;"></div>


==Overview==
==See Also==
The sigma subunit of bacterial RNA polymerase (RNAP) regulates gene expression by directing RNAP to specific promoters. Unlike sigma(70)-type proteins, the alternative sigma factor, sigma(54), requires interaction with an ATPase to open DNA. We present the solution structure of the C-terminal domain of sigma(54) bound to the -24 promoter element, in which the conserved RpoN box motif inserts into the major groove of the DNA. This structure elucidates the basis for sequence specific recognition of the -24 element, orients sigma(54) on the promoter, and suggests how the C-terminal domain of sigma(54) interacts with RNAP.
*[[Sigma factor 3D structures|Sigma factor 3D structures]]
 
== References ==
==About this Structure==
<references/>
2O9L is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Aquifex_aeolicus Aquifex aeolicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2O9L OCA].
__TOC__
 
</StructureSection>
==Reference==
Structural basis of DNA recognition by the alternative sigma-factor, sigma54., Doucleff M, Pelton JG, Lee PS, Nixon BT, Wemmer DE, J Mol Biol. 2007 Jun 15;369(4):1070-8. Epub 2007 Apr 12. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/17481658 17481658]
[[Category: Aquifex aeolicus]]
[[Category: Aquifex aeolicus]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Doucleff, M.]]
[[Category: Doucleff M]]
[[Category: Lee, P S.]]
[[Category: Lee PS]]
[[Category: Pelton, J G.]]
[[Category: Pelton JG]]
[[Category: Wemmer, D E.]]
[[Category: Wemmer DE]]
[[Category: amber]]
[[Category: generalized born solvent model]]
[[Category: helix-turn-helix]]
[[Category: protein-dna complex]]
[[Category: rna polymerase]]
[[Category: sigma-54]]
[[Category: transcription factor]]
 
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Retrieved from "https://proteopedia.org/2o9l"