/usr/share/gromacs/top/oplsaa.ff/aminoacids.c.tdb is in gromacs-data 4.5.5-2.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 | [ None ]
[ GLY-COO- ]
[ replace ]
CA CA opls_284 12.011 -0.02
C C opls_271 12.011 0.7
O O1 opls_272 15.9994 -0.8
OXT O2 opls_272 15.9994 -0.8
[ add ]
2 8 O C CA N
opls_272 15.9994 -0.8
[ impropers ]
CA O1 C O2 improper_O_C_X_Y
[ GLY-ZWITTERION_COO- ]
[ replace ]
CA CA opls_298 12.011 0.09
C C opls_271 12.011 0.7
O O1 opls_272 15.9994 -0.8
OXT O2 opls_272 15.9994 -0.8
[ add ]
2 8 O C CA N
opls_272 15.9994 -0.8
[ impropers ]
CA O1 C O2 improper_O_C_X_Y
[ PRO-COO- ]
[ replace ]
CA CA opls_285 12.011 -0.09
C C opls_271 12.011 0.7
O O1 opls_272 15.9994 -0.8
OXT O2 opls_272 15.9994 -0.8
[ add ]
2 8 O C CA N
opls_272 15.9994 -0.8
[ impropers ]
CA O1 C O2 improper_O_C_X_Y
[ PRO-ZWITTERION_COO- ]
[ replace ]
CA CA opls_246 12.011 0.13
C C opls_271 12.011 0.7
O O1 opls_272 15.9994 -0.8
OXT O2 opls_272 15.9994 -0.8
[ add ]
2 8 O C CA N
opls_272 15.9994 -0.8
[ impropers ]
CA O1 C O2 improper_O_C_X_Y
[ COO- ]
[ replace ]
CA CA opls_283 12.011 0.04
C C opls_271 12.011 0.7
O O1 opls_272 15.9994 -0.8
OXT O2 opls_272 15.9994 -0.8
[ add ]
2 8 O C CA N
opls_272 15.9994 -0.8
[ impropers ]
CA O1 C O2 improper_O_C_X_Y
[ ZWITTERION_COO- ]
[ replace ]
CA CA opls_299 12.011 0.15
C C opls_271 12.011 0.7
O O1 opls_272 15.9994 -0.8
OXT O2 opls_272 15.9994 -0.8
[ add ]
2 8 O C CA N
opls_272 15.9994 -0.8
[ impropers ]
CA O1 C O2 improper_O_C_X_Y
[ GLY-COOH ]
[ replace ]
C C opls_267 12.011 0.52
O O opls_268 15.9994 -0.53
OXT OT opls_269 15.9994 -0.44
[ add ]
1 2 OT C CA N
opls_269 15.9994 -0.44
1 2 HO O C CA
opls_270 1.008 0.45
[ impropers ]
CA OT C O improper_O_C_X_Y
[ COOH ]
[ replace ]
C C opls_267 12.011 0.52
O O opls_268 15.9994 -0.53
OXT OT opls_269 15.9994 -0.44
[ add ]
1 2 OT C CA N
opls_269 15.9994 -0.44
1 2 HO O C CA
opls_270 1.008 0.45
[ impropers ]
CA OT C O improper_O_C_X_Y
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