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On 21/11/2010 11:43 PM, #ZHAO LINA# wrote:
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<div style="">Hi,<br>
<br>
I had done 10ns simulation, <br>
<br>
by dssp, can see the beta-sheet appeared very apparently,
before it's alpha-helix.<br>
<br>
there were 5000 frames, I based on the time of the picture got
from dssp, I can guess around which frames is supposed to have
those beta sheets.<br>
<br>
After I took few frames which I thought might be representive,
but under pymol, show cartoon, there is none beta sheet at
all. There were 5000 frames, I really do not know which one is
most representive.<br>
<br>
Or maybe some parts I understand wrong.<br>
<br>
Thanks for any advice and if I am wrong please let me know,<br>
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<br>
We've really no idea of the detail of what you've done, so can't
guess. Just about anything could be the problem - all the way from
"you are looking at the wrong files", to "pymol's definition of a
beta sheet doesn't agree with dssp".<br>
<br>
If you can't report the command lines you used easily, then your
method was not reproducible enough, or not recorded well enough :-)<br>
<br>
Mark<br>
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