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 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 and do
> the align to selection. I also tried to used command align obj 01 and chain
> X, obj 02 and chain Y to align dsDNA, but still failed with message
> "invalid selection for alignment".
>
> thanks ahead for any input.
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Paul Scherrer Institut
Tim Gruene
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