> > I guess the problem is I can figure out how to specify > atoms. The prompt asks for atoms, and the example seems > to specify molecule name (a) and atom (or residue?) > numbers (1 and 131). > > Lsq >Define atoms from A (the not rotated molecule) : a1 a131 > Lsq >Define atoms from B (the rotated molecule) : b1 > hi, The above will work if you have chain id as A and B for the two co-ordinates you are working with. If you do not have any chain ids just specify as 1 131 and then 1. I hope this helps, S.Parthasarathy Molecular Biophysics Unit Indian Institute of Science Bangalore 560 012, India.
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