1uth: Difference between revisions

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{{Seed}}
[[Image:1uth.png|left|200px]]


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==DntR from Burkholderia sp. strain DNT in complex with Thiocyanate==
The line below this paragraph, containing "STRUCTURE_1uth", creates the "Structure Box" on the page.
<StructureSection load='1uth' size='340' side='right'caption='[[1uth]], [[Resolution|resolution]] 2.20&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[1uth]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Burkholderia_sp._DNT Burkholderia sp. DNT]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UTH OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1UTH FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.2&#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=SCN:THIOCYANATE+ION'>SCN</scene></td></tr>
{{STRUCTURE_1uth|  PDB=1uth  |  SCENE=  }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1uth FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1uth OCA], [https://pdbe.org/1uth PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1uth RCSB], [https://www.ebi.ac.uk/pdbsum/1uth PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1uth ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/Q7WT50_9BURK Q7WT50_9BURK]
== 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/ut/1uth_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=1uth ConSurf].
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The transcriptional regulator DntR, a member of the LysR family, is a central element in a prototype bacterial cell-based biosensor for the detection of hazardous contamination of soil and groundwater by dinitrotoluenes. To optimise the sensitivity of the biosensor for such compounds we have chosen a rational design of the inducer-binding cavity based on knowledge of the three-dimensional structure of DntR. We report two crystal structures of DntR with acetate (resolution 2.6 angstroms) and thiocyanate (resolution 2.3 angstroms), respectively, occupying the inducer-binding cavity. These structures allow for the construction of models of DntR in complex with salicylate (Kd approximately or = 4 microM) and 2,4-dinitrotoluene that provide a basis for the design of mutant DntR with enhanced specificity for dinitrotoluenes. In both crystal structures DntR crystallises as a homodimer with a "head-to-tail" arrangement of monomers in the asymmetric unit. Analysis of the crystal structure has allowed the building of a full-length model of DntR in its biologically active homotetrameric form consisting of two "head-to-head" dimers. The implications of this model for the mechanism of transcription regulation by LysR proteins are discussed.


===DNTR FROM BURKHOLDERIA SP. STRAIN DNT IN COMPLEX WITH THIOCYANATE===
Development of a bacterial biosensor for nitrotoluenes: the crystal structure of the transcriptional regulator DntR.,Smirnova IA, Dian C, Leonard GA, McSweeney S, Birse D, Brzezinski P J Mol Biol. 2004 Jul 9;340(3):405-18. PMID:15210343<ref>PMID:15210343</ref>


From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 1uth" style="background-color:#fffaf0;"></div>


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==See Also==
The line below this paragraph, {{ABSTRACT_PUBMED_15210343}}, adds the Publication Abstract to the page
*[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]]
(as it appears on PubMed at http://www.pubmed.gov), where 15210343 is the PubMed ID number.
== References ==
-->
<references/>
{{ABSTRACT_PUBMED_15210343}}
__TOC__
 
</StructureSection>
==About this Structure==
[[Category: Burkholderia sp. DNT]]
1UTH is a 2 chains structure of sequences from [http://en.wikipedia.org/wiki/Burkholderia_sp. Burkholderia sp.]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1UTH OCA].
[[Category: Large Structures]]
 
[[Category: Birse D]]
==Reference==
[[Category: Brzezinski P]]
<ref group="xtra">PMID:15210343</ref><references group="xtra"/>
[[Category: Dian C]]
[[Category: Burkholderia sp.]]
[[Category: Leonard GA]]
[[Category: Birse, D.]]
[[Category: McSweeney S]]
[[Category: Brzezinski, P.]]
[[Category: Smirnova IA]]
[[Category: Dian, C.]]
[[Category: Leonard, G A.]]
[[Category: Mcsweeney, S.]]
[[Category: Smirnova, I A.]]
[[Category: Lysr]]
[[Category: Transcriptional regulator]]
 
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Retrieved from "https://proteopedia.org/1uth"