2e1c: Difference between revisions

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-[[Image:2e1c.gif|left|200px]]<br /><applet load="2e1c" size="350" color="white" frame="true" align="right" spinBox="true"
-caption="2e1c, resolution 2.1&Aring;" />
-'''Structure of Putative HTH-type transcriptional regulator PH1519/DNA Complex'''<br />
-==Overview==
+==Structure of Putative HTH-type transcriptional regulator PH1519/DNA Complex==
-Transcriptional repressor FL11 from the hyperthermophilic archaeon, Pyrococcus OT3, was crystallized in its dimer form in complex with a DNA, duplex, TGAAAWWWTTTCA. Chemical contacting of FL11 to the terminal 5 bps, and DNA bending by propeller twisting at WWW confirmed specificity of the, interaction. Dimer-binding sites were identified in promoters of, approximately 200 transcription units coding, for example, H(+)-ATPase and, NAD(P)H dehydrogenase. In the presence of lysine, four FL11 dimers were, shown to assemble into an octamer, thereby covering the fl11 promoter. In, the "feast" mode, when P. OT3 grows on amino acids, the FL11 octamer will, terminate transcription of fl11, as was shown in vitro, thereby, derepressing transcription of many metabolic genes. In the "famine" mode, in the absence of lysine, approximately 6000 FL11 dimers present per cell, will arrest growth. This regulation resembles global regulation by, Escherichia coli leucine-responsive regulatory protein, and hints at a, prototype of transcription regulations now highly diverged.
+<StructureSection load='2e1c' size='340' side='right'caption='[[2e1c]], [[Resolution|resolution]] 2.10&Aring;' scene=''>
+== Structural highlights ==
+<table><tr><td colspan='2'>[[2e1c]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Pyrococcus_horikoshii_OT3 Pyrococcus horikoshii OT3]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E1C OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2E1C FirstGlance]. <br>
+</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.1&#8491;</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=2e1c FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2e1c OCA], [https://pdbe.org/2e1c PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2e1c RCSB], [https://www.ebi.ac.uk/pdbsum/2e1c PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2e1c ProSAT]</span></td></tr>
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/REG6_PYRHO REG6_PYRHO]
+== 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/e1/2e1c_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=2e1c ConSurf].
+<div style="clear:both"></div>
+<div style="background-color:#fffaf0;">
+== Publication Abstract from PubMed ==
+Transcriptional repressor FL11 from the hyperthermophilic archaeon, Pyrococcus OT3, was crystallized in its dimer form in complex with a DNA duplex, TGAAAWWWTTTCA. Chemical contacting of FL11 to the terminal 5 bps, and DNA bending by propeller twisting at WWW confirmed specificity of the interaction. Dimer-binding sites were identified in promoters of approximately 200 transcription units coding, for example, H+-ATPase and NAD(P)H dehydrogenase. In the presence of lysine, four FL11 dimers were shown to assemble into an octamer, thereby covering the fl11 promoter. In the "feast" mode, when P. OT3 grows on amino acids, the FL11 octamer will terminate transcription of fl11, as was shown in vitro, thereby derepressing transcription of many metabolic genes. In the "famine" mode in the absence of lysine, approximately 6000 FL11 dimers present per cell will arrest growth. This regulation resembles global regulation by Escherichia coli leucine-responsive regulatory protein, and hints at a prototype of transcription regulations now highly diverged.
-==About this Structure==
+Feast/famine regulation by transcription factor FL11 for the survival of the hyperthermophilic archaeon Pyrococcus OT3.,Yokoyama K, Ishijima SA, Koike H, Kurihara C, Shimowasa A, Kabasawa M, Kawashima T, Suzuki M Structure. 2007 Dec;15(12):1542-54. PMID:18073105<ref>PMID:18073105</ref>
-E1C is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Pyrococcus_horikoshii Pyrococcus horikoshii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2E1C OCA].
-==Reference==
+From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
-Feast/Famine Regulation by Transcription Factor FL11 for the Survival of the Hyperthermophilic Archaeon Pyrococcus OT3., Yokoyama K, Ishijima SA, Koike H, Kurihara C, Shimowasa A, Kabasawa M, Kawashima T, Suzuki M, Structure. 2007 Dec 13;15(12):1542-1554. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18073105 18073105]
+</div>
-[[Category: Protein complex]]
+<div class="pdbe-citations 2e1c" style="background-color:#fffaf0;"></div>
-[[Category: Pyrococcus horikoshii]]
+== References ==
-[[Category: Koike, H.]]
+<references/>
-[[Category: Suzuki, M.]]
+__TOC__
-[[Category: archaeal]]
+</StructureSection>
-[[Category: dna-binding]]
+[[Category: Large Structures]]
-[[Category: transcription/dna complex]]
+[[Category: Pyrococcus horikoshii OT3]]
-[[Category: transcriptional regulatory protein]]
+[[Category: Koike H]]
+[[Category: Suzuki M]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 11:21:59 2008''