2 Jul
2008
2 Jul
'08
9:38 a.m.
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
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