[gmx-users] Simulation membrane proteins in amber99 force field.

Dear James: As always, check the primary literature. The Amber99SB ff was introduced with an 8A cutoff and PME: http://www.ncbi.nlm.nih.gov/pubmed/16981200 Other cutoffs are at your discretion. I am, for instance, using this ff with a 1.0 nm cutoff and PME because I am using it with the Stockho

[gmx-users] Simulation membrane proteins in amber99 force field.

Dear Gromacs users! I'd like to perform MD simulation of the membrane protein parametrized in Amber99sb force field. Could you tell me what cut-off patterns should I use for such simulation ? James -- gmx-users mailing listgmx-users@gromacs.org http://lists.gromacs.org/mailman/listinfo/gmx-