protein folding by simulated annealing method

From: Puspita Halder (
Date: Thu May 24 2012 - 00:01:25 CDT


I have been working on protein folding problem for the last few months. I
have some high temperature (400K, 500K) euilibrated trajectories of my
protein with which I would like to adopt the simulated annealing run. Is
this doable beacause in most of the cases I saw that this technique employs
the heating as well as the cooling phase. Can I skip the heating phase if I
start directly from the high temerature structures ? Another thing is what
should be the ideal step size for temperature decrease and the number of
iterations for each step in the loop by using this method?

Thanks for your help in advance.


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