1utb: Difference between revisions
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==DntR from Burkholderia sp. strain DNT== | |||
<StructureSection load='1utb' size='340' side='right' caption='[[1utb]], [[Resolution|resolution]] 2.59Å' scene=''> | <StructureSection load='1utb' size='340' side='right' caption='[[1utb]], [[Resolution|resolution]] 2.59Å' scene=''> | ||
== Structural highlights == | == Structural highlights == | ||
<table><tr><td colspan='2'>[[1utb]] is a 2 chain structure with sequence from [http://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=1UTB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UTB FirstGlance]. <br> | <table><tr><td colspan='2'>[[1utb]] is a 2 chain structure with sequence from [http://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=1UTB OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1UTB FirstGlance]. <br> | ||
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr> | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr> | ||
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1utb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1utb OCA], [http://pdbe.org/1utb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1utb RCSB], [http://www.ebi.ac.uk/pdbsum/1utb PDBsum]</span></td></tr> | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1utb FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1utb OCA], [http://pdbe.org/1utb PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=1utb RCSB], [http://www.ebi.ac.uk/pdbsum/1utb PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=1utb ProSAT]</span></td></tr> | ||
</table> | </table> | ||
== Evolutionary Conservation == | == Evolutionary Conservation == | ||
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Check<jmol> | Check<jmol> | ||
<jmolCheckbox> | <jmolCheckbox> | ||
<scriptWhenChecked>select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ut/1utb_consurf.spt"</scriptWhenChecked> | <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/ut/1utb_consurf.spt"</scriptWhenChecked> | ||
<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked> | ||
<text>to colour the structure by Evolutionary Conservation</text> | <text>to colour the structure by Evolutionary Conservation</text> | ||
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[[Category: Dian, C]] | [[Category: Dian, C]] | ||
[[Category: Leonard, G A]] | [[Category: Leonard, G A]] | ||
[[Category: | [[Category: McSweeney, S]] | ||
[[Category: Smirnova, I A]] | [[Category: Smirnova, I A]] | ||
[[Category: Lysr]] | [[Category: Lysr]] | ||
[[Category: Transcription regulation]] | [[Category: Transcription regulation]] | ||
[[Category: Transcriptional regulator]] | [[Category: Transcriptional regulator]] | ||
Revision as of 11:11, 28 March 2018
DntR from Burkholderia sp. strain DNTDntR from Burkholderia sp. strain DNT
Structural highlights
Evolutionary Conservation Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf. Publication Abstract from PubMedThe 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. 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[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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