; When using this new tolopolgy, make sure you have included the required parameters ; (see http://swisssidechain.ch/MD/gromacs.html) [ HOX ] ; 4-amino-L-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 -0.1150 8 HD1 HP 0.1150 9 CD2 CA -0.1150 10 HD2 HP 0.1150 11 CE1 CA -0.1150 12 HE1 HP 0.1150 13 CE2 CA -0.1150 14 HE2 HP 0.1150 15 CZ CA 0.1000 16 NH NH2 -0.9000 17 HH1 H 0.4000 18 HH2 H 0.4000 19 C C 0.5100 20 O O -0.5100 21 [ 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 HD1 CD1 CE2 CD2 CG CD2 HD2 CD2 CZ CE1 HE1 CE1 CZ CE2 HE2 CE2 NH CZ NH HH1 NH HH2 [ impropers ] N -C CA HN C CA +N O NH CZ HH1 HH2 NH CZ HH2 HH1 [ cmap ] -C N CA C +N