I still got the problem. What is wrong in this command:
g_select -s molecule_in_water.pdb -select '"Close to ISO" resname SOL and
within 0.5 of group "ISO"'
In the pdb. file ISO is for the molecule and SOL for the water.
Please help
Greetings
Lara
________________________________
Von: Teemu Murtola <teemu.murt...@cbr.su.se>
An: Discussion list for GROMACS users <gmx-users@gromacs.org>
Gesendet: 18:20 Freitag, 13.April 2012
Betreff: Re: [gmx-users] File editing - only one layer of water around a
molecule
On Fri, Apr 13, 2012 at 18:30, Lara Bunte <lara.bu...@yahoo.de> wrote:
> Is there no way only to use the .pdb file? How do I create from a .pdb a rtp
> file. With pdb2gmx and than grompp?
You can also provide a .pdb file to the -s option of g_select. And you
don't need to provide a -f file in that case if you simply want to
analyze the coordinates in a single configuration of that .pdb file.
Best regards,
Teemu
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