Re: [PyMOL] Biological assembly unit

[Spencer B. <spe...@gm...>]

Dealing with multi-state models is tricky. I wrote a flatten_obj
<http://pymolwiki.org/index.php/Flatten_obj> script to combine the multiple
states into a single object. (Thanks for the motivation to finally upload
my script to the wiki!) This allows you to use the normal
align/super/cealign commands to superimpose them as expected. Your example:

run flatten_obj.py
fetch 1phz 1j8u, type=pdb1
flatten_obj 1j8u_ba, 1j8u
flatten_obj 1phz_ba, 1phz
cealign /1phz_ba//A, /1j8u_ba//A

Note that the dimer interface shifts somewhat between the two structures,
so it may be preferable to superimpose two copies of the 1ju8 asymmetric
unit onto both chains of 1phz_ba (or vice versa, depending on which
interface you consider more relevant).

-Spencer

On Thu, Oct 29, 2015 at 1:26 PM, faiza iftikhar <fai...@ho...>
wrote:

> Hi,
>
> I would like to know is there any way to combine N-terminal of 1phz
> (biological assembly structure not asymmetric one) to 1j8u(biological
> structure) in Pymol.
>
> Regards,
> Faiza
>
>
> ------------------------------------------------------------------------------
>
> _______________________________________________
> PyMOL-users mailing list (PyM...@li...)
> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
> Archives: http://www.mail-archive.com/pym...@li...
>