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2d5v

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Crystal structure of HNF-6alpha DNA-binding domain in complex with the TTR promoter

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Retrieved from "http://52.214.119.220/wiki/index.php/2d5v"

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-[[Image:2d5v.gif|left|200px]]<br /><applet load="2d5v" size="450" color="white" frame="true" align="right" spinBox="true"
-caption="2d5v, resolution 2.0&Aring;" />
-'''Crystal structure of HNF-6alpha DNA-binding domain in complex with the TTR promoter'''<br />
-==Overview==
+==Crystal structure of HNF-6alpha DNA-binding domain in complex with the TTR promoter==
-Hepatocyte nuclear factor-6 (HNF-6), a liver-enriched transcription, factor, controls the development of various tissues, such as the pancreas, and liver, and regulates the expression of several hepatic genes. This, protein belongs to the ONECUT class of homeodomain proteins and contains a, bipartite DNA-binding domain composed of a single cut domain and a, characteristic homeodomain. This transcription factor has two distinct, modes of DNA binding and transcriptional activation that use different, coactivators depending on the target gene. The crystal structure of the, bipartite DNA-binding domain of HNF-6alpha complexed with the, HNF-6-binding site of the TTR promoter revealed the DNA recognition, mechanism of this protein. Comparing our structure with the DNA-free, structure of HNF-6 or the structure of Oct-1, we discuss characteristic, features associated with DNA binding and the structural basis for the dual, mode of action of this protein, and we suggest a strategy for variability, of transcriptional activation of the target gene.
+<StructureSection load='2d5v' size='340' side='right'caption='[[2d5v]], [[Resolution|resolution]] 2.00&Aring;' scene=''>
+== Structural highlights ==
-==About this Structure==
+<table><tr><td colspan='2'>[[2d5v]] is a 6 chain structure with sequence from [https://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2D5V OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2D5V FirstGlance]. <br>
-D5V is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Rattus_norvegicus Rattus norvegicus] with ACT and GOL as [http://en.wikipedia.org/wiki/ligands ligands]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=2D5V OCA].
+</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&#8491;</td></tr>
+<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ACT:ACETATE+ION'>ACT</scene>, <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
-==Reference==
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2d5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2d5v OCA], [https://pdbe.org/2d5v PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2d5v RCSB], [https://www.ebi.ac.uk/pdbsum/2d5v PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2d5v ProSAT]</span></td></tr>
-DNA recognition mechanism of the ONECUT homeodomain of transcription factor HNF-6., Iyaguchi D, Yao M, Watanabe N, Nishihira J, Tanaka I, Structure. 2007 Jan;15(1):75-83. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=17223534 17223534]
+</table>
+== Function ==
+[https://www.uniprot.org/uniprot/HNF6_RAT HNF6_RAT] Transcriptional activator. Binds the consensus sequence 5'-DHWATTGAYTWWD-3' on a variety of gene promoters such as those of HNF3B and TTR. Important for liver genes transcription. The affinity of HNF-6-alpha and HNF-6-beta for DNA differs depending on the target sequence.
+== 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/d5/2d5v_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=2d5v ConSurf].
+<div style="clear:both"></div>
+__TOC__
+</StructureSection>
+[[Category: Large Structures]]
 [[Category: Rattus norvegicus]]
-[[Category: Single protein]]
+[[Category: Iyaguchi D]]
-[[Category: Iyaguchi, D.]]
+[[Category: Nishihira J]]
-[[Category: Nishihira, J.]]
+[[Category: Tanaka I]]
-[[Category: Tanaka, I.]]
+[[Category: Watanabe N]]
-[[Category: Watanabe, N.]]
+[[Category: Yao M]]
-[[Category: Yao, M.]]
-[[Category: ACT]]
-[[Category: GOL]]
-[[Category: transcription factor]]
-''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 09:27:25 2007''

2d5v

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Crystal structure of HNF-6alpha DNA-binding domain in complex with the TTR promoter

Structural highlights

Function

Evolutionary Conservation

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