SASTBX has an online tool for achieving this:
http://sastbx.als.lbl.gov/cgi-bin/superpose.html



[image: David Briggs on about.me]

David Briggs
about.me/david_briggs
  <http://about.me/david_briggs>

On 26 June 2015 at 11:39, Ashok Nayak <[email protected]> wrote:

> Dear Weifei,
>
> It can also be done manually in Pymol by changing the mouse mode from 3
> button viewing to 3 button editing and later moving the envelope onto the
> X-ray structure or vice-versa, however the best fit can be achieved in
> SUPCOMB.
>
> regards
> Ashok Nayak
> CSIR-CDRI, Lucknow
> India
>
>

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