; When using this new tolopolgy, make sure you have included the required parameters ; (see http://swisssidechain.ch/MD/gromacs.html) [ QU35 ] ; 3-(5-Quinolyl)-alanine [ 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 0.3100 14 NH2 NPYD -0.6200 15 CJ2 CA 0.1600 16 HJ2 HP 0.1500 17 CZ CA 0.0000 18 CH1 CA -0.1150 19 HH1 HP 0.1150 20 CJ1 CA -0.1150 21 HJ1 HP 0.1150 22 C C 0.5100 23 O O -0.5100 24 [ bonds ] N HN N CA C CA C +N CA HA CB CA O C CG CB CE1 CD1 CG CD1 CE2 CD2 CG CD2 CZ CE1 CZ CE2 NH2 CE2 CJ1 CH1 CZ CH1 CJ2 CJ1 NH2 CJ2 CB HB1 CB HB2 CD1 HD1 CD2 HD2 CE1 HE1 CJ1 HJ1 CJ2 HJ2 CH1 HH1 [ impropers ] N -C CA HN C CA +N O [ cmap ] -C N CA C +N