loop modelling in Chimera
Hi,
I am modelling a loop region. I used Chimera, which uses the web version of your modloop. But i notice in the results, that the results are not restricting proline phi to around -60 degrees.
Could you give some ideas, as to how to model loop, while maintaining preferred proline phi value?
Thanks!
On 8/5/15 9:46 AM, Mitul Saha wrote: > I am modelling a loop region. > I used Chimera, which uses the web version of your modloop. > But i notice in the results, that the results are not restricting > proline phi to around -60 degrees.
Modeller does restrain dihedrals to match known distributions. Most likely in your case it was not able to find otherwise good-scoring loop conformations that didn't violate these dihedral restraints.
Ben Webb, Modeller Caretaker
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Modeller Caretaker