Biomod/2011/TUM/TNT/Project/Structure: Difference between revisions

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Since we also wanted to perform single molecule FRET measurements with our structure, we finally had to add adaptor staples to the base which can hybridize with biotin labeled staples which then could be bound to the surface of a microscope slide.
Since we also wanted to perform single molecule FRET measurements with our structure, we finally had to add adaptor staples to the base which can hybridize with biotin labeled staples which then could be bound to the surface of a microscope slide.


[[]]
[[Image:adaptors.png|right|x200px]]
 
<h2>Design of reference structure with twist</h2>
 
In order to have a positive control, we design a control structure such that it has an internally induced twist. This was done by adding an extra base pair every 21 base pairs in every single helix of 'the U'. Since there is a cross over to another helix every 7 base pairs, this additional base pairs induce a local torque which leads to a macroscopic twist in the structure. This conformational shift could later clearly be seen in finite elements computer simulations and TEM images.
 
[[Image:loop.png|right|x200px]]
 
<h1>Cando</h1>


<h2>design of reference structure with twist</h2>


<h1>cando</h1>


<h1>comparison of model structures</h1>
<h1>comparison of model structures</h1>
TEM images are useful to examine the twist of the arms and in the base.
TEM images are useful to examine the twist of the arms and in the base.


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