; When using this new tolopolgy, make sure you have included the required parameters ; (see http://swisssidechain.ch/MD/gromacs.html) [ PF5 ] ; pentafluoro-phenylalanine [ atoms ] N NH1 -0.4700 0 HN H 0.3100 1 CA CT1 0.0700 2 HA HB 0.0900 3 CB CT2 -0.1800 4 HB1 HA 0.0900 5 HB2 HA 0.0900 6 CG CA 0.0000 7 CD1 CA 0.1900 8 FD1 F1 -0.1900 9 CD2 CA 0.1900 10 FD2 F1 -0.1900 11 CE1 CA 0.1900 12 FE1 F1 -0.1900 13 CE2 CA 0.1900 14 FE2 F1 -0.1900 15 CZ CA 0.1900 16 FZ F1 -0.1900 17 C C 0.5100 18 O O -0.5100 19 [ bonds ] N HN N CA C CA C +N CA HA CB CA O C CG CB HB1 CB HB2 CB CE1 CD1 CG CD1 FD1 CD1 CE2 CD2 CG CD2 FD2 CD2 CZ CE1 FE1 CE1 CZ CE2 FE2 CE2 FZ CZ [ impropers ] N -C CA HN C CA +N O [ cmap ] -C N CA C +N