[gmx-users] Issue with the PDB generated after topology

[Mark Abraham]

Hi,

Your description is unclear - you seem to change whether a protein and a
chain are the same thing, or not. So I don't know what you think the
problem is :-)

Mark

On Sun, Jul 2, 2017 at 5:18 PM Khadija Amine <kh.amine1 at gmail.com> wrote:

> Dear Gromacs users,
>
> I'm running a protein complex simulations with the gromacs software.
>
> My complex is two different proteins named chain A (1-166 aa) and chain B
> (55-131)with 3 ions and one ligand.
>
> I have produced the topology for the every component of my complex using
> pdb2gmx program.
>
> However, when I have visualised the resulted pdb file with pymol, I can see
> the two displayed proteins but the amino acids sequence is not complete. I
> can see the chain A and not the chain B.
>
> Please, how can I fix this issue?
> Khadija
>
> *Khadija Amine*
> Ph.D. Biology and Health
> Biochemistry & Bioinformatics
> Phone: 33339584
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