Hi Guys,

I'd like to superpose two inorganic complexes using two differently

"ordered" atom sets. My compound has quite similar substructures but I

am  sure at all what is the best "ordered" selection of atom pairs to

align. Therefore, I'd like to make a "extensive" search (with an

heuristic approach to define...) passing by the idle. I am unfortunately

missing something before getting to this point! 

Lets say that I just want to align the nitrogen atoms of the my two

structures. I have:

import chimera

import numpy

from chimera import match

from chimera import runCommand

runCommand("select #1@N=")

an1=chimera.selection.currentAtoms()

runCommand("select #0@N=)

an2=chimera.selection.currentAtoms()

chimera.match.matchAtoms(an1,an2)

And then it's when I am already stuck! 

the resulting prompt does not provide mistake an gives:

chimera.match.matchAtoms(an1,an2)

(<_chimera.Xform object at 0x9463ef8>, 0.034256915079603358)

But how this results can be send to the graphical window? I guess I have

to use the Xform object, but I can not clearly understand how to do

this.

Thanks for any help!

JD