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Re: [modeller_usage] Basic tutorial

Marco wrote:
I'm following the basic tutorial and I have a couple of question: a)
some times ago Modeller grouped similar structures and scanned
against the representative protein of each group: is this still

Sure, you can still do that if you like; see http://salilab.org/modeller/9v7/manual/node372.html

profile.build(), as used in the tutorial, is preferred these days since the older method is very slow when scanning against modern databases.

b) where I find the data on cristallografic resolution of the
chosen proteins? The pdball.pir file does not contain this data.

pdball.pir contains only sequence information; for the structural information, look in the corresponding PDB file.

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