You can reduce your box size to get a smaller system.
On 13 October 2016 at 17:41, Matilde Viegas <matildefrvie...@gmail.com>
> my name is Matilde. This is my first time using GROMACS. I'm switching from
> AMBER to GROMACS however I'm having some trouble reproducing my system:
> In AMBER, I'm working with a 5000 residues protein, a water box (TIP3) of
> 12A, roughly 1.5 million atoms total. I tried building the same system in
> GROMACS, cubic box, 12A, same protein, however I obtain a 2.5 million atoms
> system. Is there a way I can reduce the number of atoms?
> Thank you in advance,
> Gromacs Users mailing list
> * Please search the archive at http://www.gromacs.org/
> Support/Mailing_Lists/GMX-Users_List before posting!
> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
> * For (un)subscribe requests visit
> https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or
> send a mail to gmx-users-requ...@gromacs.org.
Gromacs Users mailing list
* Please search the archive at
http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting!
* Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
* For (un)subscribe requests visit
https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a
mail to gmx-users-requ...@gromacs.org.