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1tjl

From Proteopedia

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{{STRUCTURE_1tjl| PDB=1tjl | SCENE= }}
 
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===Crystal structure of transcription factor DksA from E. coli===
 
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{{ABSTRACT_PUBMED_15294156}}
 
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==Function==
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==Crystal structure of transcription factor DksA from E. coli==
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[[http://www.uniprot.org/uniprot/DKSA_ECOLI DKSA_ECOLI]] Transcription factor that acts by binding directly to the RNA polymerase (RNAP). Required for negative regulation of rRNA expression and positive regulation of several amino acid biosynthesis promoters. Also required for regulation of fis expression. Binding to RNAP disrupts interaction of RNAP with DNA, inhibits formation of initiation complexes, and amplifies effects of ppGpp and the initiating NTP on rRNA transcription. Inhibits transcript elongation, exonucleolytic RNA cleavage and pyrophosphorolysis, and increases intrinsic termination. Also involved, with RecN, in repair of DNA double-strand breaks.<ref>PMID:15294157</ref> <ref>PMID:15948952</ref> <ref>PMID:16885445</ref> <ref>PMID:22210857</ref> <ref>PMID:15294156</ref>
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<StructureSection load='1tjl' size='340' side='right'caption='[[1tjl]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
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== Structural highlights ==
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==About this Structure==
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<table><tr><td colspan='2'>[[1tjl]] is a 10 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=1TJL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1TJL FirstGlance]. <br>
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[[1tjl]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_coli"_migula_1895 "bacillus coli" migula 1895]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TJL OCA].
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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&#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=ZN:ZINC+ION'>ZN</scene></td></tr>
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==Reference==
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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=1tjl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tjl OCA], [https://pdbe.org/1tjl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1tjl RCSB], [https://www.ebi.ac.uk/pdbsum/1tjl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1tjl ProSAT], [https://www.topsan.org/Proteins/RSGI/1tjl TOPSAN]</span></td></tr>
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<ref group="xtra">PMID:015294156</ref><references group="xtra"/><references/>
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</table>
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[[Category: Bacillus coli migula 1895]]
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== Function ==
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[[Category: Artsimovitch, I.]]
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[https://www.uniprot.org/uniprot/DKSA_ECOLI DKSA_ECOLI] Transcription factor that acts by binding directly to the RNA polymerase (RNAP). Required for negative regulation of rRNA expression and positive regulation of several amino acid biosynthesis promoters. Also required for regulation of fis expression. Binding to RNAP disrupts interaction of RNAP with DNA, inhibits formation of initiation complexes, and amplifies effects of ppGpp and the initiating NTP on rRNA transcription. Inhibits transcript elongation, exonucleolytic RNA cleavage and pyrophosphorolysis, and increases intrinsic termination. Also involved, with RecN, in repair of DNA double-strand breaks.<ref>PMID:15294157</ref> <ref>PMID:15948952</ref> <ref>PMID:16885445</ref> <ref>PMID:22210857</ref> <ref>PMID:15294156</ref>
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[[Category: Perederina, A.]]
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== Evolutionary Conservation ==
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[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
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[[Image:Consurf_key_small.gif|200px|right]]
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[[Category: Svetlov, V.]]
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Check<jmol>
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[[Category: Vassylyev, D G.]]
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<jmolCheckbox>
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[[Category: Vassylyeva, M N.]]
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<scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/tj/1tjl_consurf.spt"</scriptWhenChecked>
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[[Category: Yokoyama, S.]]
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
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[[Category: Dksa]]
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<text>to colour the structure by Evolutionary Conservation</text>
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[[Category: Ppgpp]]
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</jmolCheckbox>
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[[Category: Riken structural genomics/proteomics initiative]]
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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=1tjl ConSurf].
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[[Category: Rna polymerase]]
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<div style="clear:both"></div>
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[[Category: Rsgi]]
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== References ==
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[[Category: Stringent response]]
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<references/>
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[[Category: Structural genomic]]
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__TOC__
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[[Category: Transcription]]
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</StructureSection>
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[[Category: Transcription factor]]
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[[Category: Escherichia coli]]
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[[Category: Large Structures]]
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[[Category: Artsimovitch I]]
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[[Category: Perederina A]]
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[[Category: Svetlov V]]
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[[Category: Vassylyev DG]]
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[[Category: Vassylyeva MN]]
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[[Category: Yokoyama S]]

Current revision

Crystal structure of transcription factor DksA from E. coli

PDB ID 1tjl

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