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        TUM NanU - Home 
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<!--Menue-->
<ul id="topnav">
    <li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT/Home">Home</a></li>
    <li>
        <a href="#">Project</a>
        <!--Subnav Starts Here-->
        <span>
            <a href="#">The Idea</a> |
            <a href="#">The Plan</a> |
            <a href="#">The Video</a>
        </span>
        <!--Subnav Ends Here-->
    </li>
    <li><a href="#">Results</a>
<span>
            <a href="#">Structure</a>
            <a href="#">FRET</a>
            <a href="#">....</a>
        </span>
        <!--Subnav Ends Here-->
 
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    <li><a href="http://openwetware.org/wiki/Biomod/2011/TUM/TNT">Testpage</a></li>
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        <span>
            <a href="#">Week I</a>
            <a href="#">Week II</a>
            <a href="#">Week III</a>
        </span>
        <!--Subnav Ends Here-->
    </li>
    <li><a href="#">Outlook</a></li>
    <li><a href="#">Extras</a><span>
            <a href="#">How to do a stop-motion-video</a>
            <a href="#">How to make ...</a>
            <a href="http://openwetware.org/index.php?title=Biomod/2011/TUM/TNT/Home&action=edit&">Edit</a>
        </span>
 
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<div id="abstractandlinks">
<div id="abstractandlinks">
  <div id="abstract">
<div id="abstract">
  <h1>Abstract</h1>
<h1>Welcome</h1>
Welcome to the TUM Biomod project 2011! On this page we will present a DNA origami which is used as a biosensor for DNA small molecule interactions. We would like to give you an overview about this project, how we got there, which difficulties we had to face and of course you also have the chance to get to know us a little bit.</br>
<br>
To find out more about <i>The U</i> we highly recommend watching the video.
<br>
<h1>Abstract</h1>


'''Welcome to the TUM Biomod project 2011! It was a ......... Here's a brief introduction…</br>
<b>DNA-Origami device to investigate conformational changes of DNA due to interactions with small molecules</b>
</br>
<br>
''“Zitat- falls jemand was gutes kennt”'' - xy</br>
<br>
</br>
Nanobiology offers a great opportunity to design anything you can imagine. At the beginning of this project we there were many ideas we discussed and finally we decided to build a DNA based sensor. We wanted to design a structure, that enables you to identify the influence DNA intercalating or binding molecules have on twist and length of the DNA using  FRET labeld staples. The advantage of FRET on the one hand is the easy detection via flourecent measurements and on the other hand the easy positioning of the labels on the structur. The TEM pictures we took are a control to confirm our results from the FRET experiments.</br>
</br>
'''You can take a look at our structure below. Follow the link to take a quick tour of the wiki. The links on the right lead to elements we think might beinteresting additions to the core project. Or just head for the main menu above if you know what you're looking for.</br>
 
  </div>


Small DNA-binding molecules including intercalators and groove binders cause changes in the geometry of double-helical DNA which may affect transcriptional regulation and nuclease activity. Elucidating the structural changes imposed on DNA including changes in pitch and length can shed light on functional mechanisms in the case of compounds that show selective toxicity such as antibiotic and antiviral activity. Here we report on our efforts in developing a self-assembled DNA-Origami device that can be used both in a fluorometric assay and for transmission electron microscopy with the aim to classify whether a DNA binding molecule is an intercalator or groove binder, and that reports quantitatively on changes in pitch and length caused by DNA-binding molecules. We have tested our device with different DNA binders, spermine, ethidium bromide and DAPI, in different concentrations. In accordance with structure simulations, the local deformations caused by addition of these small molecules led to observable global structural changes.
</div>
   <div id="links">
   <div id="links">
   <h1>Links</h1>
   <h1>Links</h1>


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      <div id="side5" align="center"> <a href='http://openwetware.org/wiki/Biomod/2011/TUM/TNT/LabbookA' id='lside5'></a></div>
     




     </div>
     </div>
 
<div class="clear"></div>
<div id="tour" align="center">
 
Take the Tour...
</div>
 
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<div id="struktur">
<h1>Struktur</h1>
 
 
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<div id="abstractandlinks">
<div id="abstractandlinks">
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<h1>Video</h1>
  <h1>About Biomod</h1>
<center><iframe width="800" height="450" src="http://www.youtube.com/embed/cv4mFGpLC_w" frameborder="0" allowfullscreen></iframe></center>
 
The Biomod is ……… competition. Student teams are given the opportunity to……... Working at their own schools over the summer, they design……………. This project design and competition offers the unique opportunity to………..
 
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  <div id="links">
  <h1>Sponsors</h1>
 
 
<a href="http://www.wdrmaus.de/">
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</a>
 
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  <img src="http://www.aba-fachverband.org/uploads/RTEmagicC_Logo_Maus.gif.gif" align="center"/>
</a>
 
 
<a href="http://openwetware.org/index.php?title=Biomod/2011/TUM/TNT/Maus">
  <img src="http://www.aba-fachverband.org/uploads/RTEmagicC_Logo_Maus.gif.gif" align="center"/>
</a>
 
    </div>
 
 
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__TOC__

Latest revision as of 23:42, 2 November 2011

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       TUM NanU - Home

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<html> <body> <div id="abstractandlinks"> <div id="abstract"> <h1>Welcome</h1> Welcome to the TUM Biomod project 2011! On this page we will present a DNA origami which is used as a biosensor for DNA small molecule interactions. We would like to give you an overview about this project, how we got there, which difficulties we had to face and of course you also have the chance to get to know us a little bit.</br> <br> To find out more about <i>The U</i> we highly recommend watching the video. <br> <h1>Abstract</h1>

<b>DNA-Origami device to investigate conformational changes of DNA due to interactions with small molecules</b> <br> <br>

Small DNA-binding molecules including intercalators and groove binders cause changes in the geometry of double-helical DNA which may affect transcriptional regulation and nuclease activity. Elucidating the structural changes imposed on DNA including changes in pitch and length can shed light on functional mechanisms in the case of compounds that show selective toxicity such as antibiotic and antiviral activity. Here we report on our efforts in developing a self-assembled DNA-Origami device that can be used both in a fluorometric assay and for transmission electron microscopy with the aim to classify whether a DNA binding molecule is an intercalator or groove binder, and that reports quantitatively on changes in pitch and length caused by DNA-binding molecules. We have tested our device with different DNA binders, spermine, ethidium bromide and DAPI, in different concentrations. In accordance with structure simulations, the local deformations caused by addition of these small molecules led to observable global structural changes. </div> 

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<div class="clear"></div> <div id="abstractandlinks"> <h1>Video</h1> <center><iframe width="800" height="450" src="http://www.youtube.com/embed/cv4mFGpLC_w" frameborder="0" allowfullscreen></iframe></center> </div> </body> </html>

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