Hi But it is broken. .. strand with proline with three odr residues has been broken and visible... i have Checked in vmd and pymol On 21 Jun 2017 17:16, "Mark Abraham" <mark.j.abra...@gmail.com> wrote:
> Hi, > > On Wed, Jun 21, 2017 at 1:21 PM Shivangi Agarwal < > shivangi.agarwal...@gmail.com> wrote: > > > Hello to all gmx users > > > > I am performing protein ligand complex MD simulation but my protein > > structure has been broken during energy minimization process. > > > > It's not broken, but rather in an unexpected representation. See > http://www.gromacs.org/Documentation/Terminology/ > Periodic_Boundary_Conditions > for > background and suggestions. > > Mark > > > > What may be the suitable reason? How I can solve this? > > Your support is highly appreciated > > -- > > 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. > -- 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.