[gmx-users] contact analysis within the all backbone of a protein

[SHAHEE ISLAM]

can anyone please tell me is this correct or how i can do this.

On 12/17/18, SHAHEE ISLAM <islamshahee at gmail.com> wrote:
> hi,
> to calculate the contact between the all backbone of a protein ,is the
> following command is correct
>  gmx mindist -f dynamic.xtc -s equilibration.gro -n bb-p.ndx -dt 1000
> -d 0.5 -on contact.xvg -od mindist.xvg
> because after entering this command i have to select the same group
> for two times.
>   Using this command i can calculate no of contacts between two group
> by selecting two different group.
> My question is, can i calculate all the backbone contact within a same
> protein by selecting the same group for two times.
>
> thanking you
> shahee
>