3jri

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{{STRUCTURE_3jri| PDB=3jri | SCENE= }}
 
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===Crystal structure of Fis bound to 27 bp non consensus sequence DNA F23===
 
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{{ABSTRACT_PUBMED_20395367}}
 
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==Function==
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==Crystal structure of Fis bound to 27 bp non consensus sequence DNA F23==
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[[http://www.uniprot.org/uniprot/FIS_ECOLI FIS_ECOLI]] Activates ribosomal RNA transcription, as well other genes. Plays a direct role in upstream activation of rRNA promoters. Binds to a recombinational enhancer sequence that is required to stimulate hin-mediated DNA inversion. Prevents initiation of DNA replication from oriC.<ref>PMID:2209559</ref><ref>PMID:8836178</ref>
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<StructureSection load='3jri' size='340' side='right'caption='[[3jri]], [[Resolution|resolution]] 3.11&Aring;' scene=''>
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== Structural highlights ==
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<table><tr><td colspan='2'>[[3jri]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3JRI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3JRI 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]] 3.11&#8491;</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=3jri FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3jri OCA], [https://pdbe.org/3jri PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3jri RCSB], [https://www.ebi.ac.uk/pdbsum/3jri PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3jri ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/FIS_ECOLI FIS_ECOLI] Activates ribosomal RNA transcription, as well other genes. Plays a direct role in upstream activation of rRNA promoters. Binds to a recombinational enhancer sequence that is required to stimulate hin-mediated DNA inversion. Prevents initiation of DNA replication from oriC.<ref>PMID:2209559</ref> <ref>PMID:8836178</ref>
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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/jr/3jri_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=3jri 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 bacterial nucleoid-associated protein Fis regulates diverse reactions by bending DNA and through DNA-dependent interactions with other control proteins and enzymes. In addition to dynamic nonspecific binding to DNA, Fis forms stable complexes with DNA segments that share little sequence conservation. Here we report the first crystal structures of Fis bound to high- and low-affinity 27-base-pair DNA sites. These 11 structures reveal that Fis selects targets primarily through indirect recognition mechanisms involving the shape of the minor groove and sequence-dependent induced fits over adjacent major groove interfaces. The DNA shows an overall curvature of approximately 65 degrees , and the unprecedented close spacing between helix-turn-helix motifs present in the apodimer is accommodated by severe compression of the central minor groove. In silico DNA structure models show that only the roll, twist, and slide parameters are sufficient to reproduce the changes in minor groove widths and recreate the curved Fis-bound DNA structure. Models based on naked DNA structures suggest that Fis initially selects DNA targets with intrinsically narrow minor grooves using the separation between helix-turn-helix motifs in the Fis dimer as a ruler. Then Fis further compresses the minor groove and bends the DNA to generate the bound structure.
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==About this Structure==
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The shape of the DNA minor groove directs binding by the DNA-bending protein Fis.,Stella S, Cascio D, Johnson RC Genes Dev. 2010 Apr 15;24(8):814-26. PMID:20395367<ref>PMID:20395367</ref>
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[[3jri]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3JRI OCA].
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==Reference==
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From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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<ref group="xtra">PMID:020395367</ref><references group="xtra"/><references/>
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</div>
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[[Category: Escherichia coli]]
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<div class="pdbe-citations 3jri" style="background-color:#fffaf0;"></div>
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[[Category: Cascio, D.]]
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[[Category: Johnson, R C.]]
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==See Also==
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[[Category: Stella, S.]]
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*[[FIS protein|FIS protein]]
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[[Category: Activator]]
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== References ==
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[[Category: Dna bending]]
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<references/>
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[[Category: Dna binding protein-dna complex]]
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__TOC__
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[[Category: Dna-binding]]
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</StructureSection>
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[[Category: Hth domain]]
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[[Category: Escherichia coli K-12]]
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[[Category: Indirect recognition]]
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[[Category: Large Structures]]
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[[Category: Minor groove compression]]
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[[Category: Cascio D]]
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[[Category: Protein-dna complex]]
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[[Category: Johnson RC]]
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[[Category: Transcription]]
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[[Category: Stella S]]
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[[Category: Transcription regulation]]
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Current revision

Crystal structure of Fis bound to 27 bp non consensus sequence DNA F23

PDB ID 3jri

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