Reply To: Modeling circular permutation and domain insertion

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April 25, 2011 at 1:16 am #5452
Anonymous

    well.. this cannot be answered because I am going to design the loops , and I don’t know which structure they will take.

    I think it should be all loop, but for a 50 residue loop there may be a possibility that it can form some secondary structures.So, I want to model it as a flexible chain without any secondary structure constraint.