More details about the fitting may be obtained by using the
MATRIX command. This displays the centres of geometry, the
rotation matrix and the translation vector which is the vector between
the centres of geometry. Thus to superimpose the mobile structure onto
the reference structure using these data, you should translate the
mobile set to the origin, apply the rotation matrix, translate back to
the original centre of geometry and finally apply the translation
vector.
Note that the rotation matrix is not orthogonal and cannot therefore be used to extract Euler angles. This is a result of the fitting method used.
The NFITTED command displays the number of atom pairs which
were fitted in the last fitting operation. Note that this will not
be the number of residues fitted unless you are only fitting one
atom type per residue (typically C
atoms).