[gmx-users] pdb2gmx not recognizing disulfides

[Mark Abraham]

> Hello,
>
>     I'm having problems with pdb2gmx not recognizing disulfides in my
> protein. I've tried chaning the residue name and -ss flag but neither
> works.
> I read that this was a known bug on the website. Does anyone have a fix
> for
> this?

Did you use specbond.dat correctly?
http://wiki.gromacs.org/index.php/specbond.dat

Mark