2a6h

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{{Seed}}
 
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[[Image:2a6h.png|left|200px]]
 
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==Crystal structure of the T. thermophilus RNA polymerase holoenzyme in complex with antibiotic sterptolydigin==
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The line below this paragraph, containing "STRUCTURE_2a6h", creates the "Structure Box" on the page.
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<StructureSection load='2a6h' size='340' side='right'caption='[[2a6h]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[2a6h]] is a 12 chain structure with sequence from [https://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2A6H OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2A6H FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 2.4&#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=STD:STREPTOLYDIGIN'>STD</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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{{STRUCTURE_2a6h| PDB=2a6h | SCENE= }}
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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=2a6h FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2a6h OCA], [https://pdbe.org/2a6h PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2a6h RCSB], [https://www.ebi.ac.uk/pdbsum/2a6h PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2a6h ProSAT], [https://www.topsan.org/Proteins/RSGI/2a6h TOPSAN]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/RPOA_THET8 RPOA_THET8] DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates.
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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/a6/2a6h_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=2a6h 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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Streptolydigin (Stl) is a potent inhibitor of bacterial RNA polymerases (RNAPs). The 2.4 A resolution structure of the Thermus thermophilus RNAP-Stl complex showed that, in full agreement with the available genetic data, the inhibitor binding site is located 20 A away from the RNAP active site and encompasses the bridge helix and the trigger loop, two elements that are considered to be crucial for RNAP catalytic center function. Structure-based biochemical experiments revealed additional determinants of Stl binding and demonstrated that Stl does not affect NTP substrate binding, DNA translocation, and phosphodiester bond formation. The RNAP-Stl complex structure, its comparison with the closely related substrate bound eukaryotic transcription elongation complexes, and biochemical analysis suggest an inhibitory mechanism in which Stl stabilizes catalytically inactive (preinsertion) substrate bound transcription intermediate, thereby blocking structural isomerization of RNAP to an active configuration. The results provide a basis for a design of new antibiotics utilizing the Stl-like mechanism.
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===Crystal structure of the T. thermophilus RNA polymerase holoenzyme in complex with antibiotic sterptolydigin===
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Structural basis of transcription inhibition by antibiotic streptolydigin.,Temiakov D, Zenkin N, Vassylyeva MN, Perederina A, Tahirov TH, Kashkina E, Savkina M, Zorov S, Nikiforov V, Igarashi N, Matsugaki N, Wakatsuki S, Severinov K, Vassylyev DG Mol Cell. 2005 Sep 2;19(5):655-66. PMID:16167380<ref>PMID:16167380</ref>
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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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<div class="pdbe-citations 2a6h" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_16167380}}, adds the Publication Abstract to the page
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*[[RNA polymerase 3D structures|RNA polymerase 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 16167380 is the PubMed ID number.
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*[[Sigma factor 3D structures|Sigma factor 3D structures]]
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== References ==
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{{ABSTRACT_PUBMED_16167380}}
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<references/>
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__TOC__
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==About this Structure==
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</StructureSection>
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2A6H is a 12 chains structure of sequences from [http://en.wikipedia.org/wiki/Thermus_thermophilus Thermus thermophilus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2A6H OCA].
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[[Category: Large Structures]]
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==Reference==
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Structural basis of transcription inhibition by antibiotic streptolydigin., Temiakov D, Zenkin N, Vassylyeva MN, Perederina A, Tahirov TH, Kashkina E, Savkina M, Zorov S, Nikiforov V, Igarashi N, Matsugaki N, Wakatsuki S, Severinov K, Vassylyev DG, Mol Cell. 2005 Sep 2;19(5):655-66. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16167380 16167380]
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[[Category: DNA-directed RNA polymerase]]
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[[Category: Thermus thermophilus]]
[[Category: Thermus thermophilus]]
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[[Category: Igarashi, N.]]
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[[Category: Igarashi N]]
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[[Category: Matsugaki, N.]]
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[[Category: Matsugaki N]]
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[[Category: Nikiforov, V.]]
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[[Category: Nikiforov V]]
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[[Category: Perederina, A.]]
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[[Category: Perederina A]]
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[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
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[[Category: Savkina M]]
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[[Category: Savkina, M.]]
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[[Category: Severinov K]]
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[[Category: Severinov, K.]]
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[[Category: Tahirov TH]]
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[[Category: Tahirov, T H.]]
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[[Category: Temiakov D]]
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[[Category: Temiakov, D.]]
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[[Category: Vassylyev DG]]
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[[Category: Vassylyev, D G.]]
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[[Category: Vassylyeva MN]]
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[[Category: Vassylyeva, M N.]]
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[[Category: Wakatsuki S]]
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[[Category: Wakatsuki, S.]]
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[[Category: Zenkin N]]
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[[Category: Zenkin, N.]]
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[[Category: Zorov S]]
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[[Category: Zorov, S.]]
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[[Category: Antibiotic]]
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[[Category: Riken structural genomics/proteomics initiative]]
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[[Category: Rna polymerase holoenzyme]]
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[[Category: Rsgi]]
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[[Category: Streptolydigin]]
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[[Category: Structural genomic]]
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[[Category: Transcription regulation]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Nov 16 12:54:07 2008''
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Current revision

Crystal structure of the T. thermophilus RNA polymerase holoenzyme in complex with antibiotic sterptolydigin

PDB ID 2a6h

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