genconf -renumber works well for renumbering. However, after minimization of that renumbered .gro file, I have previous numbering.
Dariush On Thu, Aug 16, 2012 at 5:54 PM, Justin Lemkul [via GROMACS] < [email protected]> wrote: > > > On 8/16/12 5:22 PM, dariush wrote: > > Dear All, > > > > I have bilayer system plus two proteins in my system. I numbered > residues > > manually, but after minimization number of residues for both protein 1 > and 2 > > starts from 1. It means in VMD when I am going to pick res. 3 (resid 3), > it > > will highlight two res. 3, one in protein 1 and one in protein 2. > > Do you know how should I figure it out? > > > > genconf -renumber > > -Justin > > -- > ======================================== > > Justin A. Lemkul, Ph.D. > Research Scientist > Department of Biochemistry > Virginia Tech > Blacksburg, VA > jalemkul[at]vt.edu | (540) 231-9080 > http://www.bevanlab.biochem.vt.edu/Pages/Personal/justin > > ======================================== > -- > gmx-users mailing list [hidden > email]<http://user/SendEmail.jtp?type=node&node=5000267&i=0> > http://lists.gromacs.org/mailman/listinfo/gmx-users > * Only plain text messages are allowed! > * Please search the archive at > http://www.gromacs.org/Support/Mailing_Lists/Search before posting! > * Please don't post (un)subscribe requests to the list. Use the > www interface or send it to [hidden > email]<http://user/SendEmail.jtp?type=node&node=5000267&i=1>. > > * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists > > > ------------------------------ > If you reply to this email, your message will be added to the discussion > below: > http://gromacs.5086.n6.nabble.com/atom-numbering-tp5000266p5000267.html > To unsubscribe from atom numbering, click > here<http://gromacs.5086.n6.nabble.com/template/NamlServlet.jtp?macro=unsubscribe_by_code&node=5000266&code=ZC5tb2hhbW1hZHlhbmlAZ21haWwuY29tfDUwMDAyNjZ8MTAxNjc4Njk3Ng==> > . > NAML<http://gromacs.5086.n6.nabble.com/template/NamlServlet.jtp?macro=macro_viewer&id=instant_html%21nabble%3Aemail.naml&base=nabble.naml.namespaces.BasicNamespace-nabble.view.web.template.NabbleNamespace-nabble.view.web.template.NodeNamespace&breadcrumbs=notify_subscribers%21nabble%3Aemail.naml-instant_emails%21nabble%3Aemail.naml-send_instant_email%21nabble%3Aemail.naml> > -- View this message in context: http://gromacs.5086.n6.nabble.com/atom-numbering-tp5000266p5000297.html Sent from the GROMACS Users Forum mailing list archive at Nabble.com. -- gmx-users mailing list [email protected] http://lists.gromacs.org/mailman/listinfo/gmx-users * Only plain text messages are allowed! * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/Search before posting! * Please don't post (un)subscribe requests to the list. Use the www interface or send it to [email protected]. * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
