6iy8

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Current revision (10:35, 27 March 2024) (edit) (undo)
 
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<StructureSection load='6iy8' size='340' side='right'caption='[[6iy8]], [[Resolution|resolution]] 3.42&Aring;' scene=''>
<StructureSection load='6iy8' size='340' side='right'caption='[[6iy8]], [[Resolution|resolution]] 3.42&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
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<table><tr><td colspan='2'>[[6iy8]] is a 4 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacillus_fluorescens_putidus"_flugge_1886 "bacillus fluorescens putidus" flugge 1886]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IY8 OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=6IY8 FirstGlance]. <br>
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<table><tr><td colspan='2'>[[6iy8]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Pseudomonas_putida Pseudomonas putida]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6IY8 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6IY8 FirstGlance]. <br>
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</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IPH:PHENOL'>IPH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
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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]] 3.42&#8491;</td></tr>
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<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=6iy8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6iy8 OCA], [http://pdbe.org/6iy8 PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6iy8 RCSB], [http://www.ebi.ac.uk/pdbsum/6iy8 PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6iy8 ProSAT]</span></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=IPH:PHENOL'>IPH</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></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=6iy8 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6iy8 OCA], [https://pdbe.org/6iy8 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6iy8 RCSB], [https://www.ebi.ac.uk/pdbsum/6iy8 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6iy8 ProSAT]</span></td></tr>
</table>
</table>
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<div style="background-color:#fffaf0;">
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== Function ==
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== Publication Abstract from PubMed ==
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[https://www.uniprot.org/uniprot/Q7WSM9_PSEPU Q7WSM9_PSEPU]
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The Pseudomonas putida phenol-responsive regulator DmpR is a bacterial enhancer binding protein (bEBP) from the AAA(+) ATPase family. Even though it was discovered more than two decades ago and has been widely used for aromatic hydrocarbon sensing, the activation mechanism of DmpR has remained elusive. Here, we show that phenol-bound DmpR forms a tetramer composed of two head-to-head dimers in a head-to-tail arrangement. The DmpR-phenol complex exhibits altered conformations within the C-termini of the sensory domains and shows an asymmetric orientation and angle in its coiled-coil linkers. The structural changes within the phenol binding sites and the downstream ATPase domains suggest that the effector binding signal is propagated through the coiled-coil helixes. The tetrameric DmpR-phenol complex interacts with the sigma(54) subunit of RNA polymerase in presence of an ATP analogue, indicating that DmpR-like bEBPs tetramers utilize a mechanistic mode distinct from that of hexameric AAA(+) ATPases to activate sigma(54)-dependent transcription.
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Tetrameric architecture of an active phenol-bound form of the AAA(+) transcriptional regulator DmpR.,Park KH, Kim S, Lee SJ, Cho JE, Patil VV, Dumbrepatil AB, Song HN, Ahn WC, Joo C, Lee SG, Shingler V, Woo EJ Nat Commun. 2020 Jun 1;11(1):2728. doi: 10.1038/s41467-020-16562-5. PMID:32483114<ref>PMID:32483114</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 6iy8" style="background-color:#fffaf0;"></div>
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== References ==
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<references/>
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__TOC__
__TOC__
</StructureSection>
</StructureSection>
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[[Category: Bacillus fluorescens putidus flugge 1886]]
 
[[Category: Large Structures]]
[[Category: Large Structures]]
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[[Category: Park, K H]]
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[[Category: Pseudomonas putida]]
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[[Category: Woo, E J]]
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[[Category: Park KH]]
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[[Category: Atpase]]
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[[Category: Woo EJ]]
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[[Category: Capr]]
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[[Category: Dmpr]]
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[[Category: Gene regulation]]
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[[Category: Phenol]]
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[[Category: Transcription]]
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Current revision

DmpR-phenol complex of Pseudomonas putida

PDB ID 6iy8

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OCA

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