View source for 1u78


==Structure of the bipartite DNA-binding domain of Tc3 transposase bound to transposon DNA==
<StructureSection load='1u78' size='340' side='right'caption='[[1u78]], [[Resolution|resolution]] 2.69&Aring;' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1u78]] 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=1U78 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1U78 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]] 2.69&#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=1u78 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1u78 OCA], [https://pdbe.org/1u78 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1u78 RCSB], [https://www.ebi.ac.uk/pdbsum/1u78 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1u78 ProSAT]</span></td></tr>
</table>
== Function ==
[https://www.uniprot.org/uniprot/TC3A_CAEEL TC3A_CAEEL] Binds specifically to the terminal nucleotides of the TC3 inverted repeat. Its expression results in frequent excision and transposition of endogenous TC3 elements. TC3 transposase acts by making double strand breaks at the ends of TC3 element. The excised element would then be inserted into a 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/u7/1u78_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=1u78 ConSurf].
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== Publication Abstract from PubMed ==
The bipartite DNA-binding domain of Tc3 transposase, Tc3A, was crystallized in complex with its transposon recognition sequence. In the structure the two DNA-binding domains form structurally related helix-turn-helix (HTH) motifs. They both bind to the major groove on a single DNA oligomer, separated by a linker that interacts closely with the minor groove. The structure resembles that of the transcription factor Pax6 DNA-binding domain, but the relative orientation of the HTH-domain is different. The DNA conformation is distorted, characterized by local narrowing of the minor groove and bends at both ends. The protein-DNA recognition takes place through base and backbone contacts, as well as shape-recognition of the distortions in the DNA. Charged interactions are primarily found in the N-terminal domain and the linker indicating that these may form the initial contact area. Two independent dimer interfaces could be relevant for bringing together transposon ends and for binding to a direct repeat site in the transposon end. In contrast to the Tn5 synaptic complex, the two Tc3A DNA-binding domains bind to a single Tc3 transposon end.

Structural analysis of the bipartite DNA-binding domain of Tc3 transposase bound to transposon DNA.,Watkins S, van Pouderoyen G, Sixma TK Nucleic Acids Res. 2004 Aug 10;32(14):4306-12. Print 2004. PMID:15304566<ref>PMID:15304566</ref>

From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
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<div class="pdbe-citations 1u78" style="background-color:#fffaf0;"></div>

==See Also==
*[[Transposase 3D structures|Transposase 3D structures]]
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Caenorhabditis elegans]]
[[Category: Large Structures]]
[[Category: Sixma TK]]
[[Category: Watkins S]]
[[Category: Van Pouderoyen G]]