User:ElNando888/Blog/Mimic: Difference between revisions

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<p>A possible way to compensate the difference would be to use a reduced form of the loop, with an additional cWW pair, like in [http://rna.bgsu.edu/rna3dhub/motif/view/IL_49493.4 motif&nbsp;IL_49493.4]</p>
<p>A possible way to compensate the difference would be to use a reduced form of the loop, with an additional cWW pair, like in [http://rna.bgsu.edu/rna3dhub/motif/view/IL_49493.4 motif&nbsp;IL_49493.4]</p>
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<p>By the way, this canonical pairs mimic...</p>
<table border="0" cellpadding="3">
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<td>[[File:Mimic 1.png]]</td>
<td>[[File:Mimic 2.png]]</td>
</tr>
</tbody>
</table>
<p>I'm counting -11.9 kcal, much more than the -4.9 that we're supposed to mimic...</p>

Revision as of 01:24, 18 February 2014

 

This entry won't develop much to a blog post. I'm just throwing ideas in the context of a discussion I'm having with Brourd about mimcs.

 

<tbody> </tbody>
1FMN stacking pattern.png Sarcin-ricin stacking pattern.png
FMN Sarcin-ricin (15 nts)

 

The top half is structurally quite similar, but the bottom differs a bit. Specifically, it is undeniable that the FMN molecule offers a much larger stacking area than the A+A platform in motif IL_85647.3

 

<tbody> </tbody>
1FMN stacking pattern.png Sarcin-ricin (reduced) stacking pattern.png
FMN Sarcin-ricin (13 nts)

 

A possible way to compensate the difference would be to use a reduced form of the loop, with an additional cWW pair, like in motif IL_49493.4

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By the way, this canonical pairs mimic...

<tbody> </tbody>
Mimic 1.png Mimic 2.png

I'm counting -11.9 kcal, much more than the -4.9 that we're supposed to mimic...