Try this:
PyMOL>super PDBfile1CA, PDBfile2CA
PyMOL>Save PDBfile1.pdb, PDBfile1
PyMOL>Save PDBfile2.pdb, PDBfile2
Explanation:
The first line aligns the alpha carbons of the two files.I assume you
have loaded the two files in advance. The RMSD will appear on the screen
as output.The
Hi,
Try the following in PyMOL's command prompt.
from glob import glob
for file in glob("path/to/data/*.mol2"): cmd.load(file)
Takanori Nakane
On 2014-09-10 11:10, ashika torikora wrote:
> I don't think I understand what glob does or how to use it.
>
> 2014-09-10 10:59 GMT+02:00 T. Nakane :
>
Hello Amita,
On Wed, 2014-09-10 09:41 EDT, Amita Rani Sahoo
wrote:
> Dear Pymol users,
>
> I want to calculate backbone RMSD of proteins having two different
> conformations (For example 2RH1 and 1F88). With the align command it
> calculates the executive RMSD, but i need backbone RMSD. Pleas
Hi,
> I tried writing a macro where I woul use load *.mol2 but that doesn't
> work either.
You can use glob in Python. An example is in the
"User Comments/Examples" section of
http://www.pymolwiki.org/index.php/Load .
Best regards,
Takanori Nakane
On 2014-09-10 08:56, ashika torikora wrote:
>
Hi,
I have a bunch of mol2 files that I'm trying to load all at once in pymol.
I know you can do that in linux by launching pymol with
>pymol *.mol2
but I'm in windows, so I tried adding pymol's address to my PATH
environmental variable but that didn't allow me to launch pymol in t
