Re: [gmx-users] simulation of ternary complex

[Erik Marklund]

Dera Maria,

Yes that is possible. Be sure to make a good choice of forcefield, so that you 
have decent parameters for all molecule types in your simulation.

Kind regards,
Erik
__
Erik Marklund, PhD
Marie Skłodowska Curie INCA Fellow
Department of Chemistry – BMC
Uppsala Universtity
erik.markl...@kemi.uu.se

On 24 Jan 2017, at 11:25, maria khan 
> wrote:

Dear gromacs Users..

I want to simulate ternary complex of protein -DNA -ligand..Is it possible
to simulate it combinely?

secondly..Gromacs has no graphical interface to visualize results..how can
we resolve this issue..Using VMD i have some issues regarding trajectories..

Regards..

Maria khan.

ICS,,university of peshawar..
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Re: [gmx-users] simulation of ternary complex

[Amir Zeb]

I want to simulate ternary complex of protein -DNA -ligand..Is it possible
to simulate it combinely?

Yeah sure, you can, your order might be protein-DNA-ligand during topology
development and gro file format

good luck

On Tue, Jan 24, 2017 at 2:25 AM, maria khan 
wrote:

> Dear gromacs Users..
>
> I want to simulate ternary complex of protein -DNA -ligand..Is it possible
> to simulate it combinely?
>
> secondly..Gromacs has no graphical interface to visualize results..how can
> we resolve this issue..Using VMD i have some issues regarding
> trajectories..
>
> Regards..
>
> Maria khan.
>
> ICS,,university of peshawar..
> --
> 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.
>
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[gmx-users] simulation of ternary complex

[maria khan]

Dear gromacs Users..

I want to simulate ternary complex of protein -DNA -ligand..Is it possible
to simulate it combinely?

secondly..Gromacs has no graphical interface to visualize results..how can
we resolve this issue..Using VMD i have some issues regarding trajectories..

Regards..

Maria khan.

ICS,,university of peshawar..
-- 
Gromacs Users mailing list

* Please search the archive at 
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