Re: [modeller_usage] Problem with structure-structure alignment with salign

On 6/15/15 3:18 AM, Pawel Kedzierski wrote: > How to reliably calculate the minimum RMSD (and superposition) between > CA carbons, based on sequence alignment?

If you don't want to change the existing alignment, there is only one way to it in Modeller - use selection.superpose(). The alignment routines (salign, malign3d) will modify the alignment.

Ben Webb, Modeller Caretaker