Dear Priya,
One possible way is to count the number of residues assigned as
part of alpha helices
in your peptide and divide that by the total number of residues.
I wrote a couple of BASH scripts and a C program to process DSSP output
in my study of thermal unfolding, but there might be an easier way?
regards,
Choon-Peng
--------------------------------
Doctoral Student (Yr 2.6)
Lab. of Molecular Design (Prof KITAO Akio)
Room 107, Institute of Molecular and Cellular Biosciences
The University of Tokyo
http://www.iam.u-tokyo.ac.jp/MolDes/indexE.html
---------------------------------
"All my life through, the new sights of Nature
made me rejoice like a child" -- Marie Curie
On 2007/08/07, at 16:58, priya priya wrote:
> Dear
>
> I want to observe the alpha helix content in my peptide during the
> simulation(Replica exchange method).
> I am using DSSP software to calculate the secondary content but it
> gives information about ahat type of secondary structure is there
> and not the helical content.
> Regards
>
> Why delete messages? Unlimited storage is just a click away.
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Received on Wed Aug 08 2007 - 06:07:34 PDT
