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Re: [modeller_usage] Bad Contacts and Dimeric symmetry

nornik wrote:
I am now making new models with only symmetry restraints on the alpha
carbons. However, I still think it's strange that when i have a model
with 26 or even 38 bad clashes they are all 2.5 or 2.6 Å. Do you know
why this is?

Probably because Procheck's cutoff is higher than Modeller's. Modeller will only complain about cutoffs below 2.3A, since that's the minimum sum of heavy atom radii in the CHARMM force field.

	Ben Webb, Modeller Caretaker
Modeller mail list: http://salilab.org/mailman/listinfo/modeller_usage