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1l9u

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[[Image:1l9u.gif|left|200px]]<br /><applet load="1l9u" size="350" color="white" frame="true" align="right" spinBox="true"
 
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caption="1l9u, resolution 4.0&Aring;" />
 
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'''THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION'''<br />
 
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==Overview==
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==THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION==
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The crystal structure of the initiating form of Thermus aquaticus RNA polymerase, containing core RNA polymerase (alpha2betabeta'omega) and the promoter specificity sigma subunit, has been determined at 4 angstrom resolution. Important structural features of the RNA polymerase and their roles in positioning sigma within the initiation complex are delineated, as well as the role played by sigma in modulating the opening of the RNA polymerase active-site channel. The two carboxyl-terminal domains of sigma are separated by 45 angstroms on the surface of the RNA polymerase, but are linked by an extended loop. The loop winds near the RNA polymerase active site, where it may play a role in initiating nucleotide substrate binding, and out through the RNA exit channel. The advancing RNA transcript must displace the loop, leading to abortive initiation and ultimately to sigma release.
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<StructureSection load='1l9u' size='340' side='right'caption='[[1l9u]], [[Resolution|resolution]] 4.00&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[1l9u]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_aquaticus Thermus aquaticus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L9U OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1L9U 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">X-ray diffraction, [[Resolution|Resolution]] 4&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=1l9u FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l9u OCA], [https://pdbe.org/1l9u PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1l9u RCSB], [https://www.ebi.ac.uk/pdbsum/1l9u PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1l9u ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RPOA_THEAQ RPOA_THEAQ]
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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/l9/1l9u_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=1l9u ConSurf].
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<div style="clear:both"></div>
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==About this Structure==
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==See Also==
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1L9U is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Thermus_aquaticus Thermus aquaticus] with <scene name='pdbligand=MG:'>MG</scene> and <scene name='pdbligand=ZN:'>ZN</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/DNA-directed_RNA_polymerase DNA-directed RNA polymerase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=2.7.7.6 2.7.7.6] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L9U OCA].
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*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
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*[[Sigma factor 3D structures|Sigma factor 3D structures]]
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==Reference==
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__TOC__
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Structural basis of transcription initiation: RNA polymerase holoenzyme at 4 A resolution., Murakami KS, Masuda S, Darst SA, Science. 2002 May 17;296(5571):1280-4. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=12016306 12016306]
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</StructureSection>
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[[Category: DNA-directed RNA polymerase]]
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[[Category: Large Structures]]
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[[Category: Protein complex]]
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[[Category: Thermus aquaticus]]
[[Category: Thermus aquaticus]]
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[[Category: Darst, S A.]]
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[[Category: Darst SA]]
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[[Category: Masuda, S.]]
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[[Category: Masuda S]]
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[[Category: Murakami, K S.]]
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[[Category: Murakami KS]]
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[[Category: MG]]
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[[Category: ZN]]
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[[Category: coiled-coil]]
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[[Category: helix-turn-helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:42:55 2008''
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Current revision

THERMUS AQUATICUS RNA POLYMERASE HOLOENZYME AT 4 A RESOLUTION

PDB ID 1l9u

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