2kei: Difference between revisions

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-{{Seed}}
-[[Image:2kei.png|left|200px]]
-<!--
+==Refined Solution Structure of a Dimer of LAC repressor DNA-Binding domain complexed to its natural operator O1==
-The line below this paragraph, containing "STRUCTURE_2kei", creates the "Structure Box" on the page.
+<StructureSection load='2kei' size='340' side='right'caption='[[2kei]]' 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'>[[2kei]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KEI OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2KEI 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">Solution NMR, 20 models</td></tr>
--->
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2kei FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2kei OCA], [https://pdbe.org/2kei PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2kei RCSB], [https://www.ebi.ac.uk/pdbsum/2kei PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2kei ProSAT]</span></td></tr>
-{{STRUCTURE_2kei|  PDB=2kei  |  SCENE=  }}
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/LACI_ECOLI LACI_ECOLI] Repressor of the lactose operon. Binds allolactose as an inducer.
+== 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/ke/2kei_consurf.spt"</scriptWhenChecked>
+    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview03.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=2kei ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+The structures of a dimeric mutant of the Lac repressor DNA-binding domain complexed with the auxiliary operators O2 and O3 have been determined using NMR spectroscopy and compared to the structures of the previously determined Lac-O1 and Lac-nonoperator complexes. Structural analysis of the Lac-O1 and Lac-O2 complexes shows highly similar structures with very similar numbers of specific and nonspecific contacts, in agreement with similar affinities for these two operators. The left monomer of the Lac repressor in the Lac-O3 complex retains most of these specific contacts. However, in the right half-site of the O3 operator, there is a significant loss of protein-DNA contacts, explaining the low affinity of the Lac repressor for the O3 operator. The binding mode in the right half-site resembles that of the nonspecific complex. In contrast to the Lac-nonoperator DNA complex where no hinge helices are formed, the stability of the hinge helices in the weak Lac-O3 complex is the same as in the Lac-O1 and Lac-O2 complexes, as judged from the results of hydrogen/deuterium experiments.
-===Refined Solution Structure of a Dimer of LAC repressor DNA-Binding domain complexed to its natural operator O1===
+Specificity and affinity of Lac repressor for the auxiliary operators O2 and O3 are explained by the structures of their protein-DNA complexes.,Romanuka J, Folkers GE, Biris N, Tishchenko E, Wienk H, Bonvin AM, Kaptein R, Boelens R J Mol Biol. 2009 Jul 17;390(3):478-89. Epub 2009 May 18. PMID:19450607<ref>PMID:19450607</ref>
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
+</div>
+<div class="pdbe-citations 2kei" style="background-color:#fffaf0;"></div>
-==About this Structure==
+==See Also==
-KEI is a 4 chains structure of sequences from [http://en.wikipedia.org/wiki/Escherichia_coli Escherichia coli]. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2KEI OCA].
+*[[Lac repressor|Lac repressor]]
-[[Category: Escherichia coli]]
+== References ==
-[[Category: Biris, N.]]
+<references/>
-[[Category: Boelens, R.]]
+__TOC__
-[[Category: Folkers, G.]]
+</StructureSection>
-[[Category: Kaptein, R.]]
+[[Category: Escherichia coli K-12]]
-[[Category: Romanuka, J.]]
+[[Category: Large Structures]]
-[[Category: Tishchenko, E.]]
+[[Category: Biris N]]
-[[Category: Wienk, H.]]
+[[Category: Boelens R]]
-[[Category: Dna-binding]]
+[[Category: Folkers G]]
-[[Category: Lac operator]]
+[[Category: Kaptein R]]
-[[Category: Lac repressor]]
+[[Category: Romanuka J]]
-[[Category: Nmr]]
+[[Category: Tishchenko E]]
-[[Category: Protein-dna complex]]
+[[Category: Wienk H]]
-[[Category: Repressor]]
-[[Category: Transcription]]
-[[Category: Transcription regulation]]
-[[Category: Transcription/dna complex]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul  8 20:13:20 2009''