[gmx-users] secondary structure

s lal badshah shahbiochemist at yahoo.com
Tue Jun 10 12:53:43 CEST 2008

Hi All,
I want to study and calculate the secondary structure as a function of time of my MD simulated protein. I have no DSSP installed but will use VMD for this.Can any one suggest me which files of MD simulation output I should used? or I need to develop PDB file of the whole MD simulation trajectories?
Hoping for an early guidance 

NCE in Physical Chemistry, 
University of Peshawar. 
Cell # 03349060632.

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