Thu, 10/08/2009 - 00:16
#2
Secondary structure prediction results:
Here is the sequence logo predicted by the SAM server.
H = helix
E = sheet
C = loop (or coil)
The taller the letter at each position, the higher the probability of that specific secondary structure for that amino acid.
For example, the amino acid Valine at residue 101 is highly predicted to be part of a sheet. However, the Alanine at residue 61 is predicted to have an equal probability of being anything.
As soon as I get the sequence logo secondary structure predictions back from the SAM server
(http://compbio.soe.ucsc.edu/SAM_T08/faq.html)
I will post them here!