> Nearly all the force fields that can be used with Gromacs have > nucleic acids represented as fundamental building blocks.
That may be true, but does not mean that in all these force fields the parameters are good enough to assess 'real' behaviour of nucleic acids. E.g. the older GROMOS force fields (43a1, 43a2, 45a3) should not be used due to bad behaviour. Amber seems a good choice for Protein/DNA simulations. It's not the program/package that counts, it's the force field. Cheers, Tsjerk -- Tsjerk A. Wassenaar, Ph.D. Junior UD (post-doc) Biomolecular NMR, Bijvoet Center Utrecht University Padualaan 8 3584 CH Utrecht The Netherlands P: +31-30-2539931 F: +31-30-2537623 _______________________________________________ gmx-users mailing list gmx-users@gromacs.org http://www.gromacs.org/mailman/listinfo/gmx-users Please search the archive at http://www.gromacs.org/search before posting! Please don't post (un)subscribe requests to the list. Use the www interface or send it to gmx-users-requ...@gromacs.org. Can't post? Read http://www.gromacs.org/mailing_lists/users.php
