Reply To: energy minimization of loop only

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January 13, 2011 at 2:16 pm #4830
pbradley
Participant

    thanks everyone for these tips.

    I do realize this will produce very small changes but this is exactly what I want! This reason why is that I want to score and rank a number of different loop conformations. It is possible that a good loop model that is close to native may still score badly due to clashing atoms, etc, and so give a misleadingly bad score.