From: Jessen Lucas (jessenlucas0_at_gmail.com)
Date: Thu Jan 12 2017 - 20:09:30 CST
I am reading "Exploring Multidimensional Free Energy Landscapes Using
Time-Dependent Biases on Collective Variables", in there, I want to plot
the free energy landscape, I saw there use three collective variables, the
rmsd with respective to the ideal alpha-helical, ω-shaped γ-turn, and
turn/310-helix conformations, respectively. My question is how to set this
three collective variables in NAMD? I do not know what the
conformations of ideal
alpha-helical, ω-shaped γ-turn, and turn/310-helix.
Thanks for any kindly suggestion.
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