Dear Xiao Lei,
You can try the command given below to align structures. Before you do that
you have to create mobile and target chains to different objects.
align mobile, targeted, transform=0/1; transform=0(without) / 1(with
superposition)
For more options refer the pymol wiki (https://pymolwik
Dear Xiao Lei,
You might want to consider UCSF Chimera for this task
https://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/matchalign/matchalign.html
Best,
Stefan
Dear Xiao Lei,
In my opinion, lsqman from the Uppsala Software Factory is the most flexible
program for aligning structures. Aligning based on dsDNA should also be
possible in lsqkap, I guess.
Best,
Tim
On Saturday, May 13, 2017 1:29:27 PM CEST Xiao Lei wrote:
> Dear All,
>
> I was wondering
Dear All,
I was wondering in Pymol is there a way to align various NCS protein dsDNA
complex structure in asymmetric unit based on the double helix of DNA?
I can do the align with the protein part with action-->align--> to molecule
or to selection. But this way does not work out if I select dsDNA
