[gmx-users] HOW TO USE SILVER ATOMS IN AMBER99 FORCE FIELD

[Kavosh Zandsalimi]

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
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