Reply To: loop remodelling with a fixed bound DNA

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March 8, 2010 at 5:51 pm #4388
pbradley
Participant

    having now had a look at PyRosetta I’m still not sure this is possible.

    If I want to use fragments and CCD my understanding is that you need to convert to a centroid model and then back to full atom for High-Res refinement. Unfortunately I don’t think centroid mode understands DNA residue types (at least when I have tried).

    So I am able to load my complex and run high-res refinement on my model successfully (I think) but I would really like to do some more aggressive frag set moves beforehand.

    Is there any way around this?

    P.S. I should point out that my complex is quite large so I have not idealized my models.