Dear all,
thank you very much for your suggestions.
At the end I have used the script that Thomas provided and I got the angle
between the two helices.
Best wishes,
Almudena.
2015-03-04 20:13 GMT+01:00 Thomas Holder :
> Hi Almudena,
>
> you can do it with PyMOL, using PSICO's angle_between_he
Hi Almudena,
you can do it with PyMOL, using PSICO's angle_between_helices with the "cafit"
method. Example:
run
https://raw.githubusercontent.com/speleo3/pymol-psico/master/psico/orientation.py
fetch 3pt6, async=0
as cartoon
angle_between_helices chain D+J, chain I+C, cafit
Hope that helps.
Hi Almudena,
You can extract the vector for the helical aixs by 3DNA, and then calculate
the angle between the vectors.
I hope this help!
Best,
Chen
On Wed, Mar 4, 2015 at 1:12 PM, Pavel Afonine wrote:
>
> I would like to ask if any of you know how to measure the angle between
>> two nucleic
> I would like to ask if any of you know how to measure the angle between
> two nucleic acid helices? I am trying with pymol, but have not found a
> solution to it yet.
>
phenix.angle might help, with or without effort on your side.
Pavel
Hi everyone,
I would like to ask if any of you know how to measure the angle between two
nucleic acid helices? I am trying with pymol, but have not found a solution
to it yet.
Any ideas?
Thanks a lot.
Best,
Almudena.
