Take a look at the entries in ions.itp for the appropriate entry format. Note: this will probably not solve the problem of coordination bonds.
On 2012-03-07 04:49:01PM +0330, Kavosh Zandsalimi wrote: > Dear GMX users; > > I hope you are well. > I want to simulate the interactions between DNA and Ag clusters. The problem > is that Amber99 ff does not know silver atoms and residues. > I have defined Ag and Au in atomtypes.atp and assigned Ag LJ parameters in > ffnonbonded.itp. But I cannot find out how to define new residues. > > I would be so thankful if you help me solve this problem. > > ========================================================== > > Kavosh Zandsalimi > Biophysics MSc student > Institute of Biochemistry and Biophysics(IBB), > University of Tehran, Enghelab Ave., Tehran, Iran > P.O. Box: 13145 - 1384 > -- > gmx-users mailing list [email protected] > http://lists.gromacs.org/mailman/listinfo/gmx-users > 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 -- ================================================================== Peter C. Lai | University of Alabama-Birmingham Programmer/Analyst | KAUL 752A Genetics, Div. of Research | 705 South 20th Street [email protected] | Birmingham AL 35294-4461 (205) 690-0808 | ================================================================== -- gmx-users mailing list [email protected] http://lists.gromacs.org/mailman/listinfo/gmx-users 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
