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Re: [modeller_usage] GA341 assessment

Lella Sana wrote:
how could I carry out GA341 assessment on a model not produced by MODELLER but by an ab initio method?
I'm using MODELLER 9v2.

The example given at http://salilab.org/modeller/9v4/manual/node188.html should work for any PDB file - not just one produced by Modeller. But, as described in the manual, the sequence identity is a parameter used in the GA341 score, so you need to provide that. For models that are not homology-derived, you'll have to make a reasonable guess at some "equivalent sequence identity" or use a different assessment method, such as DOPE.

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