Dear AMBER users
I have simulated a small peptide. It has a single alpha helix structure,a s
visible from the VMD view. I would like to quantify the helix formation. I
was thinking of looking at the dihedral angle between certain residues in
the helix over the entire trajectory to get some idea. Is this correct? Can
you suggest any other method to quantify the formation/time evolution of
the helix?
Thanks in advance for your help
Suchetana Gupta
Graduate Student
Department of Biotechnology
IIT Madras
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Received on Tue Apr 29 2014 - 08:30:02 PDT
