1l3l

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{{Seed}}
 
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[[Image:1l3l.png|left|200px]]
 
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==Crystal structure of a bacterial quorum-sensing transcription factor complexed with pheromone and DNA==
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The line below this paragraph, containing "STRUCTURE_1l3l", creates the "Structure Box" on the page.
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<StructureSection load='1l3l' size='340' side='right'caption='[[1l3l]], [[Resolution|resolution]] 1.66&Aring;' scene=''>
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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== Structural highlights ==
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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<table><tr><td colspan='2'>[[1l3l]] is a 8 chain structure with sequence from [https://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L3L OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1L3L FirstGlance]. <br>
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or leave the SCENE parameter empty for the default display.
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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]] 1.66&#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=LAE:3-OXO-OCTANOIC+ACID+(2-OXO-TETRAHYDRO-FURAN-3-YL)-AMIDE'>LAE</scene>, <scene name='pdbligand=MSE:SELENOMETHIONINE'>MSE</scene></td></tr>
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{{STRUCTURE_1l3l| PDB=1l3l | SCENE= }}
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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=1l3l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1l3l OCA], [https://pdbe.org/1l3l PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1l3l RCSB], [https://www.ebi.ac.uk/pdbsum/1l3l PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1l3l ProSAT]</span></td></tr>
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</table>
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== Function ==
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[https://www.uniprot.org/uniprot/TRAR_RHIRD TRAR_RHIRD] Positive regulation of conjugal transfer of Ti plasmids. TraR activates target genes in the presence of AAI and also activates traR and traI themselves.
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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/l3/1l3l_consurf.spt"</scriptWhenChecked>
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<scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=1l3l 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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Many proteobacteria are able to monitor their population densities through the release of pheromones known as N-acylhomoserine lactones. At high population densities, these pheromones elicit diverse responses that include bioluminescence, biofilm formation, production of antimicrobials, DNA exchange, pathogenesis and symbiosis. Many of these regulatory systems require a pheromone-dependent transcription factor similar to the LuxR protein of Vibrio fischeri. Here we present the structure of a LuxR-type protein. TraR of Agrobacterium tumefaciens was solved at 1.66 A as a complex with the pheromone N-3-oxooctanoyl-L-homoserine lactone (OOHL) and its TraR DNA-binding site. The amino-terminal domain of TraR is an alpha/beta/alpha sandwich that binds OOHL, whereas the carboxy-terminal domain contains a helix turn helix DNA-binding motif. The TraR dimer displays a two-fold symmetry axis in each domain; however, these two axes of symmetry are at an approximately 90 degree angle, resulting in a pronounced overall asymmetry of the complex. The pheromone lies fully embedded within the protein with virtually no solvent contact, and makes numerous hydrophobic contacts with the protein as well as four hydrogen bonds: three direct and one water-mediated.
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===Crystal structure of a bacterial quorum-sensing transcription factor complexed with pheromone and DNA===
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Structure of a bacterial quorum-sensing transcription factor complexed with pheromone and DNA.,Zhang RG, Pappas T, Brace JL, Miller PC, Oulmassov T, Molyneaux JM, Anderson JC, Bashkin JK, Winans SC, Joachimiak A Nature. 2002 Jun 27;417(6892):971-4. PMID:12087407<ref>PMID:12087407</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 1l3l" style="background-color:#fffaf0;"></div>
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==See Also==
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The line below this paragraph, {{ABSTRACT_PUBMED_12087407}}, adds the Publication Abstract to the page
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*[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]]
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(as it appears on PubMed at http://www.pubmed.gov), where 12087407 is the PubMed ID number.
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== References ==
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<references/>
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{{ABSTRACT_PUBMED_12087407}}
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__TOC__
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</StructureSection>
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==About this Structure==
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1L3L is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Agrobacterium_tumefaciens Agrobacterium tumefaciens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1L3L OCA].
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==Reference==
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Structure of a bacterial quorum-sensing transcription factor complexed with pheromone and DNA., Zhang RG, Pappas T, Brace JL, Miller PC, Oulmassov T, Molyneaux JM, Anderson JC, Bashkin JK, Winans SC, Joachimiak A, Nature. 2002 Jun 27;417(6892):971-4. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/12087407 12087407]
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[[Category: Agrobacterium tumefaciens]]
[[Category: Agrobacterium tumefaciens]]
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[[Category: Single protein]]
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[[Category: Large Structures]]
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[[Category: Anderson, J C.]]
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[[Category: Anderson JC]]
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[[Category: Bashkin, J K.]]
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[[Category: Bashkin JK]]
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[[Category: Brace, J L.]]
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[[Category: Brace JL]]
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[[Category: Joachimiak, A.]]
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[[Category: Joachimiak A]]
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[[Category: Miller, P C.]]
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[[Category: Miller PC]]
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[[Category: Molyneaux, J M.]]
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[[Category: Molyneaux JM]]
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[[Category: Oulmassov, T.]]
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[[Category: Oulmassov T]]
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[[Category: Pappas, T.]]
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[[Category: Pappas T]]
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[[Category: Winans, S C.]]
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[[Category: Winans SC]]
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[[Category: Zhang, R.]]
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[[Category: Zhang R]]
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[[Category: Alpha/beta/alpha sandwich]]
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[[Category: Asymmetry of the protein-dna complex]]
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[[Category: Helix-turn-helix dna binding motif]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 11:37:44 2008''
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Current revision

Crystal structure of a bacterial quorum-sensing transcription factor complexed with pheromone and DNA

PDB ID 1l3l

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