Hi, That apparent bonding pattern is an artefact of your visualization tool - see http://manual.gromacs.org/documentation/current/user-guide/faq.html#analysis-and-visualization. The question for you is why they got so close. Did they start that way? Did something push them there?
Mark On Thu, 4 Apr 2019 at 14:14 Anjali Patel <anjalipatel60...@gmail.com> wrote: > Thank you @Mark Abraham & Naveen BK. > > @ Mark Abraham > I have visualize the system and yes there are two H2O molecules which are > bonded to each other. Oxygen is bonded to other molecule's Hydrogen atom. > How i can solve this. should i do optimization again but how only for water > molecules? > > > With regards > Anjali Patel > Research Scholar > Department of Physics > The M S University of Baroda, Vadodara-390002 > -- > 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.
