[Chimera-users] Applying session parameters to another pdb file.

David Sáez davidsaez at udec.cl
Mon Jul 29 11:40:03 PDT 2019

Thanks Elaine, I'm going to use your method.



On Mon, Jul 29, 2019 at 12:22 PM Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Hi David,
> The way I’ve gotten sessions with similar views on similar structures is
> to have a “reference” structure that I use for positioning.  In your case
> you’d start with the session you already have, then open your next
> structure and match it onto the first structure.  Then you could hide or
> close the first structure.  If you have several similar structures you’d
> probably want to keep starting with the same reference structure.
> I did not find a more direct way because the initial positions of the
> structures (just from the coordinates in their files before you move
> anything) are not necessarily aligned.  I.e. it would not generally work
> simply to write and reuse the transformation matrix of the first structure.
> For matching one structure onto the other, you could use whichever method
> works best for you in this case.
> <http://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/superposition.html>
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
> > On Jul 29, 2019, at 9:10 AM, David Sáez <davidsaez at udec.cl> wrote:
> >
> > Dear Chimera experts,
> >
> > I have saved a session of Chimera showing the perfect angle and size for
> the molecules of interest. Now I would like to apply the same parameters to
> visualize another (but similar, only differnet coordinates) pdb file. Is
> there a way to do that?
> >
> > Thanks in advance.
> >
> > David
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