I am trying to arrange two (RNA) molecules relative to each other such =
that a number of selected residues are getting close enough to form =
contacts via H-bonds. To me it seems quite difficult to use pyMol to =
precisely arrange molecules in space (I use the translate and rotate =
commands or move the molecules around free-handed). Is there an option =
to at least display a coordinate system?
Furthermore, I have used the measurement wizard to define distances =
between interacting residues. I was hoping that these displayed =
distances would dynamically change as I change the molecules position =
such that I can monitor appropriate arrangement more easily, but this =
does not seem to happen. Is something like this possible at all in =
pyMOL? Or can anyone describe a reasonable pyMOL method of how to match =
two (RNA) molecules to interact. I know a docking program would be best, =
but I fear the molecules I work with are much too complicated for this.
Thanks for your help,