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New page: left|200px<br /><applet load="1skn" size="450" color="white" frame="true" align="right" spinBox="true" caption="1skn, resolution 2.500Å" /> '''THE BINDING DOMAIN ...
 
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[[Image:1skn.gif|left|200px]]<br /><applet load="1skn" size="450" color="white" frame="true" align="right" spinBox="true"
caption="1skn, resolution 2.500&Aring;" />
'''THE BINDING DOMAIN OF SKN-1 IN COMPLEX WITH DNA: A NEW DNA-BINDING MOTIF'''<br />


==Overview==
==THE BINDING DOMAIN OF SKN-1 IN COMPLEX WITH DNA: A NEW DNA-BINDING MOTIF==
The DNA-binding domain of Skn-1, a developmental transcription factor that, specifies mesoderm in C. elegans, is shown by X-ray crystallography to, have a novel fold in which a compact, monomeric, four-helix unit organizes, two DNA-contact elements. At the C-terminus, a helix extends from the, domain to occupy the major groove of DNA in a manner similar to bZip, proteins. Skn-1, however, lacks the leucine zipper found in all bZips., Additional contacts with the DNA are made by a short basic segment at the, N-terminus of the domain, reminiscent of the 'homeodomain arm'.
<StructureSection load='1skn' size='340' side='right'caption='[[1skn]], [[Resolution|resolution]] 2.50&Aring;' scene=''>
 
== Structural highlights ==
==About this Structure==
<table><tr><td colspan='2'>[[1skn]] is a 3 chain structure with sequence from [https://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1SKN OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1SKN FirstGlance]. <br>
1SKN is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/Caenorhabditis_elegans Caenorhabditis elegans] with LDA as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://ispc.weizmann.ac.il/oca-bin/ocashort?id=1SKN 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]] 2.5&#8491;</td></tr>
 
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=LDA:LAURYL+DIMETHYLAMINE-N-OXIDE'>LDA</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=1skn FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1skn OCA], [https://pdbe.org/1skn PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1skn RCSB], [https://www.ebi.ac.uk/pdbsum/1skn PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1skn ProSAT]</span></td></tr>
A new DNA-binding motif in the Skn-1 binding domain-DNA complex., Rupert PB, Daughdrill GW, Bowerman B, Matthews BW, Nat Struct Biol. 1998 Jun;5(6):484-91. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9628487 9628487]
</table>
== Function ==
[https://www.uniprot.org/uniprot/SKN1_CAEEL SKN1_CAEEL] Required to specify the fate of ventral blastomeres in the early embryo, and postembryonically for the development of the intestine. Directly regulates expression of zygotically expressed med-1 and med-2 to direct mesendoderm development.<ref>PMID:1547503</ref> <ref>PMID:11463373</ref>
== 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/sk/1skn_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=1skn ConSurf].
<div style="clear:both"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Caenorhabditis elegans]]
[[Category: Caenorhabditis elegans]]
[[Category: Single protein]]
[[Category: Large Structures]]
[[Category: Bowerman, B.]]
[[Category: Bowerman B]]
[[Category: Daughdrill, G.W.]]
[[Category: Daughdrill GW]]
[[Category: Matthews, B.W.]]
[[Category: Matthews BW]]
[[Category: Rupert, P.B.]]
[[Category: Rupert PB]]
[[Category: LDA]]
[[Category: complex (transcription factor/dna)]]
 
''Page seeded by [http://ispc.weizmann.ac.il/oca OCA ] on Wed Nov 21 02:26:29 2007''

Latest revision as of 08:31, 14 February 2024

THE BINDING DOMAIN OF SKN-1 IN COMPLEX WITH DNA: A NEW DNA-BINDING MOTIF

1skn, resolution 2.50Å

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