/usr/share/gromacs/top/amber96.ff/rna.rtp is in gromacs-data 5.0.2-1.
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1022 1023 1024 1025 1026 1027 1028 1029 1030 1031 1032 1033 1034 1035 1036 1037 1038 1039 1040 1041 1042 1043 1044 1045 1046 1047 1048 1049 1050 1051 1052 1053 1054 1055 1056 1057 1058 1059 1060 1061 1062 1063 1064 1065 1066 1067 1068 1069 1070 1071 1072 1073 1074 1075 1076 1077 1078 1079 1080 1081 1082 1083 1084 1085 1086 1087 1088 1089 1090 1091 1092 1093 1094 1095 1096 1097 1098 1099 1100 1101 1102 1103 1104 1105 1106 1107 1108 1109 1110 1111 1112 1113 1114 1115 1116 1117 1118 1119 1120 1121 1122 1123 1124 1125 1126 1127 1128 1129 1130 1131 1132 1133 1134 1135 1136 1137 1138 1139 1140 1141 1142 1143 1144 1145 1146 1147 1148 1149 1150 1151 1152 1153 1154 1155 1156 1157 1158 1159 1160 1161 1162 1163 1164 1165 1166 1167 1168 1169 1170 1171 1172 1173 1174 1175 1176 1177 1178 1179 1180 1181 1182 1183 1184 1185 1186 1187 1188 1189 1190 1191 1192 1193 1194 1195 1196 1197 1198 1199 1200 1201 1202 1203 1204 1205 1206 1207 1208 1209 1210 1211 1212 1213 1214 1215 1216 1217 1218 1219 1220 1221 1222 1223 1224 1225 1226 1227 1228 1229 1230 1231 1232 1233 1234 1235 1236 1237 1238 1239 1240 1241 1242 1243 | [ bondedtypes ]
; Column 1 : default bondtype
; Column 2 : default angletype
; Column 3 : default proper dihedraltype
; Column 4 : default improper dihedraltype
; Column 5 : This controls the generation of dihedrals from the bonding.
; All possible dihedrals are generated automatically. A value of
; 1 here means that all these are retained. A value of
; 0 here requires generated dihedrals be removed if
; * there are any dihedrals on the same central atoms
; specified in the residue topology, or
; * there are other identical generated dihedrals
; sharing the same central atoms, or
; * there are other generated dihedrals sharing the
; same central bond that have fewer hydrogen atoms
; Column 6 : number of neighbors to exclude from non-bonded interactions
; Column 7 : 1 = generate 1,4 interactions between pairs of hydrogen atoms
; 0 = do not generate such
; Column 8 : 1 = remove proper dihedrals if found centered on the same
; bond as an improper dihedral
; 0 = do not generate such
; bonds angles dihedrals impropers all_dihedrals nrexcl HH14 RemoveDih
1 1 9 4 1 3 1 0
; 5' (XXF), 3' (XXT), non-terminal (XX), and monomer (XXN) nuc's
[ RA5 ]
[ atoms ]
H5T HO 0.42950 1
O5' OH -0.62230 2
C5' CT 0.05580 3
H5'1 H1 0.06790 4
H5'2 H1 0.06790 5
C4' CT 0.10650 6
H4' H1 0.11740 7
O4' OS -0.35480 8
C1' CT 0.03940 9
H1' H2 0.20070 10
N9 N* -0.02510 11
C8 CK 0.20060 12
H8 H5 0.15530 13
N7 NB -0.60730 14
C5 CB 0.05150 15
C6 CA 0.70090 16
N6 N2 -0.90190 17
H61 H 0.41150 18
H62 H 0.41150 19
N1 NC -0.76150 20
C2 CQ 0.58750 21
H2 H5 0.04730 22
N3 NC -0.69970 23
C4 CB 0.30530 24
C3' CT 0.20220 25
H3' H1 0.06150 26
C2' CT 0.06700 27
H2'1 H1 0.09720 28
O2' OH -0.61390 29
HO'2 HO 0.41860 30
O3' OS -0.52460 31
[ bonds ]
H5T O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N9
C1' C2'
N9 C8
N9 C4
C8 H8
C8 N7
N7 C5
C5 C6
C5 C4
C6 N6
C6 N1
N6 H61
N6 H62
N1 C2
C2 H2
C2 N3
N3 C4
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
[ impropers ]
C4 C8 N9 C1'
C6 H61 N6 H62
N9 N7 C8 H8
N1 N3 C2 H2
C5 N6 C6 N1
[ RA ]
[ atoms ]
P P 1.16620 1
O1P O2 -0.77600 2
O2P O2 -0.77600 3
O5' OS -0.49890 4
C5' CT 0.05580 5
H5'1 H1 0.06790 6
H5'2 H1 0.06790 7
C4' CT 0.10650 8
H4' H1 0.11740 9
O4' OS -0.35480 10
C1' CT 0.03940 11
H1' H2 0.20070 12
N9 N* -0.02510 13
C8 CK 0.20060 14
H8 H5 0.15530 15
N7 NB -0.60730 16
C5 CB 0.05150 17
C6 CA 0.70090 18
N6 N2 -0.90190 19
H61 H 0.41150 20
H62 H 0.41150 21
N1 NC -0.76150 22
C2 CQ 0.58750 23
H2 H5 0.04730 24
N3 NC -0.69970 25
C4 CB 0.30530 26
C3' CT 0.20220 27
H3' H1 0.06150 28
C2' CT 0.06700 29
H2'1 H1 0.09720 30
O2' OH -0.61390 31
HO'2 HO 0.41860 32
O3' OS -0.52460 33
[ bonds ]
P O1P
P O2P
P O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N9
C1' C2'
N9 C8
N9 C4
C8 H8
C8 N7
N7 C5
C5 C6
C5 C4
C6 N6
C6 N1
N6 H61
N6 H62
N1 C2
C2 H2
C2 N3
N3 C4
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
-O3' P
[ impropers ]
C4 C8 N9 C1'
C6 H61 N6 H62
N9 N7 C8 H8
N1 N3 C2 H2
C5 N6 C6 N1
[ RA3 ]
[ atoms ]
P P 1.16620 1
O1P O2 -0.77600 2
O2P O2 -0.77600 3
O5' OS -0.49890 4
C5' CT 0.05580 5
H5'1 H1 0.06790 6
H5'2 H1 0.06790 7
C4' CT 0.10650 8
H4' H1 0.11740 9
O4' OS -0.35480 10
C1' CT 0.03940 11
H1' H2 0.20070 12
N9 N* -0.02510 13
C8 CK 0.20060 14
H8 H5 0.15530 15
N7 NB -0.60730 16
C5 CB 0.05150 17
C6 CA 0.70090 18
N6 N2 -0.90190 19
H61 H 0.41150 20
H62 H 0.41150 21
N1 NC -0.76150 22
C2 CQ 0.58750 23
H2 H5 0.04730 24
N3 NC -0.69970 25
C4 CB 0.30530 26
C3' CT 0.20220 27
H3' H1 0.06150 28
C2' CT 0.06700 29
H2'1 H1 0.09720 30
O2' OH -0.61390 31
HO'2 HO 0.41860 32
O3' OH -0.65410 33
H3T HO 0.43760 34
[ bonds ]
P O1P
P O2P
P O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N9
C1' C2'
N9 C8
N9 C4
C8 H8
C8 N7
N7 C5
C5 C6
C5 C4
C6 N6
C6 N1
N6 H61
N6 H62
N1 C2
C2 H2
C2 N3
N3 C4
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
O3' H3T
-O3' P
[ impropers ]
C4 C8 N9 C1'
C6 H61 N6 H62
N9 N7 C8 H8
N1 N3 C2 H2
C5 N6 C6 N1
[ RAN ]
[ atoms ]
H5T HO 0.42950 1
O5' OH -0.62230 2
C5' CT 0.05580 3
H5'1 H1 0.06790 4
H5'2 H1 0.06790 5
C4' CT 0.10650 6
H4' H1 0.11740 7
O4' OS -0.35480 8
C1' CT 0.03940 9
H1' H2 0.20070 10
N9 N* -0.02510 11
C8 CK 0.20060 12
H8 H5 0.15530 13
N7 NB -0.60730 14
C5 CB 0.05150 15
C6 CA 0.70090 16
N6 N2 -0.90190 17
H61 H 0.41150 18
H62 H 0.41150 19
N1 NC -0.76150 20
C2 CQ 0.58750 21
H2 H5 0.04730 22
N3 NC -0.69970 23
C4 CB 0.30530 24
C3' CT 0.20220 25
H3' H1 0.06150 26
C2' CT 0.06700 27
H2'1 H1 0.09720 28
O2' OH -0.61390 29
HO'2 HO 0.41860 30
O3' OH -0.65410 31
H3T HO 0.43760 32
[ bonds ]
H5T O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N9
C1' C2'
N9 C8
N9 C4
C8 H8
C8 N7
N7 C5
C5 C6
C5 C4
C6 N6
C6 N1
N6 H61
N6 H62
N1 C2
C2 H2
C2 N3
N3 C4
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
O3' H3T
[ impropers ]
C4 C8 N9 C1'
C6 H61 N6 H62
N9 N7 C8 H8
N1 N3 C2 H2
C5 N6 C6 N1
[ RU5 ]
[ atoms ]
H5T HO 0.42950 1
O5' OH -0.62230 2
C5' CT 0.05580 3
H5'1 H1 0.06790 4
H5'2 H1 0.06790 5
C4' CT 0.10650 6
H4' H1 0.11740 7
O4' OS -0.35480 8
C1' CT 0.06740 9
H1' H2 0.18240 10
N1 N* 0.04180 11
C6 CM -0.11260 12
H6 H4 0.21880 13
C5 CM -0.36350 14
H5 HA 0.18110 15
C4 C 0.59520 16
O4 O -0.57610 17
N3 NA -0.35490 18
H3 H 0.31540 19
C2 C 0.46870 20
O2 O -0.54770 21
C3' CT 0.20220 22
H3' H1 0.06150 23
C2' CT 0.06700 24
H2'1 H1 0.09720 25
O2' OH -0.61390 26
HO'2 HO 0.41860 27
O3' OS -0.52460 28
[ bonds ]
H5T O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N1
C1' C2'
N1 C6
N1 C2
C6 H6
C6 C5
C5 H5
C5 C4
C4 O4
C4 N3
N3 H3
N3 C2
C2 O2
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
[ impropers ]
C2 C6 N1 C1'
C6 C4 C5 H5
N1 N3 C2 O2
C5 N3 C4 O4
C4 C2 N3 H3
N1 C5 C6 H6
[ RU ]
[ atoms ]
P P 1.16620 1
O1P O2 -0.77600 2
O2P O2 -0.77600 3
O5' OS -0.49890 4
C5' CT 0.05580 5
H5'1 H1 0.06790 6
H5'2 H1 0.06790 7
C4' CT 0.10650 8
H4' H1 0.11740 9
O4' OS -0.35480 10
C1' CT 0.06740 11
H1' H2 0.18240 12
N1 N* 0.04180 13
C6 CM -0.11260 14
H6 H4 0.21880 15
C5 CM -0.36350 16
H5 HA 0.18110 17
C4 C 0.59520 18
O4 O -0.57610 19
N3 NA -0.35490 20
H3 H 0.31540 21
C2 C 0.46870 22
O2 O -0.54770 23
C3' CT 0.20220 24
H3' H1 0.06150 25
C2' CT 0.06700 26
H2'1 H1 0.09720 27
O2' OH -0.61390 28
HO'2 HO 0.41860 29
O3' OS -0.52460 30
[ bonds ]
P O1P
P O2P
P O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N1
C1' C2'
N1 C6
N1 C2
C6 H6
C6 C5
C5 H5
C5 C4
C4 O4
C4 N3
N3 H3
N3 C2
C2 O2
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
-O3' P
[ impropers ]
C2 C6 N1 C1'
C6 C4 C5 H5
N1 N3 C2 O2
C5 N3 C4 O4
C4 C2 N3 H3
N1 C5 C6 H6
[ RU3 ]
[ atoms ]
P P 1.16620 1
O1P O2 -0.77600 2
O2P O2 -0.77600 3
O5' OS -0.49890 4
C5' CT 0.05580 5
H5'1 H1 0.06790 6
H5'2 H1 0.06790 7
C4' CT 0.10650 8
H4' H1 0.11740 9
O4' OS -0.35480 10
C1' CT 0.06740 11
H1' H2 0.18240 12
N1 N* 0.04180 13
C6 CM -0.11260 14
H6 H4 0.21880 15
C5 CM -0.36350 16
H5 HA 0.18110 17
C4 C 0.59520 18
O4 O -0.57610 19
N3 NA -0.35490 20
H3 H 0.31540 21
C2 C 0.46870 22
O2 O -0.54770 23
C3' CT 0.20220 24
H3' H1 0.06150 25
C2' CT 0.06700 26
H2'1 H1 0.09720 27
O2' OH -0.61390 28
HO'2 HO 0.41860 29
O3' OH -0.65410 30
H3T HO 0.43760 31
[ bonds ]
P O1P
P O2P
P O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N1
C1' C2'
N1 C6
N1 C2
C6 H6
C6 C5
C5 H5
C5 C4
C4 O4
C4 N3
N3 H3
N3 C2
C2 O2
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
O3' H3T
-O3' P
[ impropers ]
C2 C6 N1 C1'
C6 C4 C5 H5
N1 N3 C2 O2
C5 N3 C4 O4
C4 C2 N3 H3
N1 C5 C6 H6
[ RUN ]
[ atoms ]
H5T HO 0.42950 1
O5' OH -0.62230 2
C5' CT 0.05580 3
H5'1 H1 0.06790 4
H5'2 H1 0.06790 5
C4' CT 0.10650 6
H4' H1 0.11740 7
O4' OS -0.35480 8
C1' CT 0.06740 9
H1' H2 0.18240 10
N1 N* 0.04180 11
C6 CM -0.11260 12
H6 H4 0.21880 13
C5 CM -0.36350 14
H5 HA 0.18110 15
C4 C 0.59520 16
O4 O -0.57610 17
N3 NA -0.35490 18
H3 H 0.31540 19
C2 C 0.46870 20
O2 O -0.54770 21
C3' CT 0.20220 22
H3' H1 0.06150 23
C2' CT 0.06700 24
H2'1 H1 0.09720 25
O2' OH -0.61390 26
HO'2 HO 0.41860 27
O3' OH -0.65410 28
H3T HO 0.43760 29
[ bonds ]
H5T O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N1
C1' C2'
N1 C6
N1 C2
C6 H6
C6 C5
C5 H5
C5 C4
C4 O4
C4 N3
N3 H3
N3 C2
C2 O2
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
O3' H3T
[ impropers ]
C2 C6 N1 C1'
C6 C4 C5 H5
N1 N3 C2 O2
C5 N3 C4 O4
C4 C2 N3 H3
N1 C5 C6 H6
[ RG5 ]
[ atoms ]
H5T HO 0.42950 1
O5' OH -0.62230 2
C5' CT 0.05580 3
H5'1 H1 0.06790 4
H5'2 H1 0.06790 5
C4' CT 0.10650 6
H4' H1 0.11740 7
O4' OS -0.35480 8
C1' CT 0.01910 9
H1' H2 0.20060 10
N9 N* 0.04920 11
C8 CK 0.13740 12
H8 H5 0.16400 13
N7 NB -0.57090 14
C5 CB 0.17440 15
C6 C 0.47700 16
O6 O -0.55970 17
N1 NA -0.47870 18
H1 H 0.34240 19
C2 CA 0.76570 20
N2 N2 -0.96720 21
H21 H 0.43640 22
H22 H 0.43640 23
N3 NC -0.63230 24
C4 CB 0.12220 25
C3' CT 0.20220 26
H3' H1 0.06150 27
C2' CT 0.06700 28
H2'1 H1 0.09720 29
O2' OH -0.61390 30
HO'2 HO 0.41860 31
O3' OS -0.52460 32
[ bonds ]
H5T O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N9
C1' C2'
N9 C8
N9 C4
C8 H8
C8 N7
N7 C5
C5 C6
C5 C4
C6 O6
C6 N1
N1 H1
N1 C2
C2 N2
C2 N3
N2 H21
N2 H22
N3 C4
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
[ impropers ]
C4 C8 N9 C1'
C5 N1 C6 O6
C6 C2 N1 H1
C2 H21 N2 H22
N9 N7 C8 H8
N2 N1 C2 N3
[ RG ]
[ atoms ]
P P 1.16620 1
O1P O2 -0.77600 2
O2P O2 -0.77600 3
O5' OS -0.49890 4
C5' CT 0.05580 5
H5'1 H1 0.06790 6
H5'2 H1 0.06790 7
C4' CT 0.10650 8
H4' H1 0.11740 9
O4' OS -0.35480 10
C1' CT 0.01910 11
H1' H2 0.20060 12
N9 N* 0.04920 13
C8 CK 0.13740 14
H8 H5 0.16400 15
N7 NB -0.57090 16
C5 CB 0.17440 17
C6 C 0.47700 18
O6 O -0.55970 19
N1 NA -0.47870 20
H1 H 0.34240 21
C2 CA 0.76570 22
N2 N2 -0.96720 23
H21 H 0.43640 24
H22 H 0.43640 25
N3 NC -0.63230 26
C4 CB 0.12220 27
C3' CT 0.20220 28
H3' H1 0.06150 29
C2' CT 0.06700 30
H2'1 H1 0.09720 31
O2' OH -0.61390 32
HO'2 HO 0.41860 33
O3' OS -0.52460 34
[ bonds ]
P O1P
P O2P
P O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N9
C1' C2'
N9 C8
N9 C4
C8 H8
C8 N7
N7 C5
C5 C6
C5 C4
C6 O6
C6 N1
N1 H1
N1 C2
C2 N2
C2 N3
N2 H21
N2 H22
N3 C4
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
-O3' P
[ impropers ]
C4 C8 N9 C1'
C5 N1 C6 O6
C6 C2 N1 H1
C2 H21 N2 H22
N9 N7 C8 H8
N2 N1 C2 N3
[ RG3 ]
[ atoms ]
P P 1.16620 1
O1P O2 -0.77600 2
O2P O2 -0.77600 3
O5' OS -0.49890 4
C5' CT 0.05580 5
H5'1 H1 0.06790 6
H5'2 H1 0.06790 7
C4' CT 0.10650 8
H4' H1 0.11740 9
O4' OS -0.35480 10
C1' CT 0.01910 11
H1' H2 0.20060 12
N9 N* 0.04920 13
C8 CK 0.13740 14
H8 H5 0.16400 15
N7 NB -0.57090 16
C5 CB 0.17440 17
C6 C 0.47700 18
O6 O -0.55970 19
N1 NA -0.47870 20
H1 H 0.34240 21
C2 CA 0.76570 22
N2 N2 -0.96720 23
H21 H 0.43640 24
H22 H 0.43640 25
N3 NC -0.63230 26
C4 CB 0.12220 27
C3' CT 0.20220 28
H3' H1 0.06150 29
C2' CT 0.06700 30
H2'1 H1 0.09720 31
O2' OH -0.61390 32
HO'2 HO 0.41860 33
O3' OH -0.65410 34
H3T HO 0.43760 35
[ bonds ]
P O1P
P O2P
P O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N9
C1' C2'
N9 C8
N9 C4
C8 H8
C8 N7
N7 C5
C5 C6
C5 C4
C6 O6
C6 N1
N1 H1
N1 C2
C2 N2
C2 N3
N2 H21
N2 H22
N3 C4
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
O3' H3T
-O3' P
[ impropers ]
C4 C8 N9 C1'
C5 N1 C6 O6
C6 C2 N1 H1
C2 H21 N2 H22
N9 N7 C8 H8
N2 N1 C2 N3
[ RGN ]
[ atoms ]
H5T HO 0.42950 1
O5' OH -0.62230 2
C5' CT 0.05580 3
H5'1 H1 0.06790 4
H5'2 H1 0.06790 5
C4' CT 0.10650 6
H4' H1 0.11740 7
O4' OS -0.35480 8
C1' CT 0.01910 9
H1' H2 0.20060 10
N9 N* 0.04920 11
C8 CK 0.13740 12
H8 H5 0.16400 13
N7 NB -0.57090 14
C5 CB 0.17440 15
C6 C 0.47700 16
O6 O -0.55970 17
N1 NA -0.47870 18
H1 H 0.34240 19
C2 CA 0.76570 20
N2 N2 -0.96720 21
H21 H 0.43640 22
H22 H 0.43640 23
N3 NC -0.63230 24
C4 CB 0.12220 25
C3' CT 0.20220 26
H3' H1 0.06150 27
C2' CT 0.06700 28
H2'1 H1 0.09720 29
O2' OH -0.61390 30
HO'2 HO 0.41860 31
O3' OH -0.65410 32
H3T HO 0.43760 33
[ bonds ]
H5T O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N9
C1' C2'
N9 C8
N9 C4
C8 H8
C8 N7
N7 C5
C5 C6
C5 C4
C6 O6
C6 N1
N1 H1
N1 C2
C2 N2
C2 N3
N2 H21
N2 H22
N3 C4
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
O3' H3T
[ impropers ]
C4 C8 N9 C1'
C5 N1 C6 O6
C6 C2 N1 H1
C2 H21 N2 H22
N9 N7 C8 H8
N2 N1 C2 N3
[ RC5 ]
[ atoms ]
H5T HO 0.42950 1
O5' OH -0.62230 2
C5' CT 0.05580 3
H5'1 H1 0.06790 4
H5'2 H1 0.06790 5
C4' CT 0.10650 6
H4' H1 0.11740 7
O4' OS -0.35480 8
C1' CT 0.00660 9
H1' H2 0.20290 10
N1 N* -0.04840 11
C6 CM 0.00530 12
H6 H4 0.19580 13
C5 CM -0.52150 14
H5 HA 0.19280 15
C4 CA 0.81850 16
N4 N2 -0.95300 17
H41 H 0.42340 18
H42 H 0.42340 19
N3 NC -0.75840 20
C2 C 0.75380 21
O2 O -0.62520 22
C3' CT 0.20220 23
H3' H1 0.06150 24
C2' CT 0.06700 25
H2'1 H1 0.09720 26
O2' OH -0.61390 27
HO'2 HO 0.41860 28
O3' OS -0.52460 29
[ bonds ]
H5T O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N1
C1' C2'
N1 C6
N1 C2
C6 H6
C6 C5
C5 H5
C5 C4
C4 N4
C4 N3
N4 H41
N4 H42
N3 C2
C2 O2
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
[ impropers ]
C2 C6 N1 C1'
N1 N3 C2 O2
C4 H41 N4 H42
N1 C5 C6 H6
C6 C4 C5 H5
C5 N4 C4 N3
[ RC ]
[ atoms ]
P P 1.16620 1
O1P O2 -0.77600 2
O2P O2 -0.77600 3
O5' OS -0.49890 4
C5' CT 0.05580 5
H5'1 H1 0.06790 6
H5'2 H1 0.06790 7
C4' CT 0.10650 8
H4' H1 0.11740 9
O4' OS -0.35480 10
C1' CT 0.00660 11
H1' H2 0.20290 12
N1 N* -0.04840 13
C6 CM 0.00530 14
H6 H4 0.19580 15
C5 CM -0.52150 16
H5 HA 0.19280 17
C4 CA 0.81850 18
N4 N2 -0.95300 19
H41 H 0.42340 20
H42 H 0.42340 21
N3 NC -0.75840 22
C2 C 0.75380 23
O2 O -0.62520 24
C3' CT 0.20220 25
H3' H1 0.06150 26
C2' CT 0.06700 27
H2'1 H1 0.09720 28
O2' OH -0.61390 29
HO'2 HO 0.41860 30
O3' OS -0.52460 31
[ bonds ]
P O1P
P O2P
P O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N1
C1' C2'
N1 C6
N1 C2
C6 H6
C6 C5
C5 H5
C5 C4
C4 N4
C4 N3
N4 H41
N4 H42
N3 C2
C2 O2
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
-O3' P
[ impropers ]
C2 C6 N1 C1'
N1 N3 C2 O2
C4 H41 N4 H42
N1 C5 C6 H6
C6 C4 C5 H5
C5 N4 C4 N3
[ RC3 ]
[ atoms ]
P P 1.16620 1
O1P O2 -0.77600 2
O2P O2 -0.77600 3
O5' OS -0.49890 4
C5' CT 0.05580 5
H5'1 H1 0.06790 6
H5'2 H1 0.06790 7
C4' CT 0.10650 8
H4' H1 0.11740 9
O4' OS -0.35480 10
C1' CT 0.00660 11
H1' H2 0.20290 12
N1 N* -0.04840 13
C6 CM 0.00530 14
H6 H4 0.19580 15
C5 CM -0.52150 16
H5 HA 0.19280 17
C4 CA 0.81850 18
N4 N2 -0.95300 19
H41 H 0.42340 20
H42 H 0.42340 21
N3 NC -0.75840 22
C2 C 0.75380 23
O2 O -0.62520 24
C3' CT 0.20220 25
H3' H1 0.06150 26
C2' CT 0.06700 27
H2'1 H1 0.09720 28
O2' OH -0.61390 29
HO'2 HO 0.41860 30
O3' OH -0.65410 31
H3T HO 0.43760 32
[ bonds ]
P O1P
P O2P
P O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N1
C1' C2'
N1 C6
N1 C2
C6 H6
C6 C5
C5 H5
C5 C4
C4 N4
C4 N3
N4 H41
N4 H42
N3 C2
C2 O2
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
O3' H3T
-O3' P
[ impropers ]
C2 C6 N1 C1'
N1 N3 C2 O2
C4 H41 N4 H42
N1 C5 C6 H6
C6 C4 C5 H5
C5 N4 C4 N3
[ RCN ]
[ atoms ]
H5T HO 0.42950 1
O5' OH -0.62230 2
C5' CT 0.05580 3
H5'1 H1 0.06790 4
H5'2 H1 0.06790 5
C4' CT 0.10650 6
H4' H1 0.11740 7
O4' OS -0.35480 8
C1' CT 0.00660 9
H1' H2 0.20290 10
N1 N* -0.04840 11
C6 CM 0.00530 12
H6 H4 0.19580 13
C5 CM -0.52150 14
H5 HA 0.19280 15
C4 CA 0.81850 16
N4 N2 -0.95300 17
H41 H 0.42340 18
H42 H 0.42340 19
N3 NC -0.75840 20
C2 C 0.75380 21
O2 O -0.62520 22
C3' CT 0.20220 23
H3' H1 0.06150 24
C2' CT 0.06700 25
H2'1 H1 0.09720 26
O2' OH -0.61390 27
HO'2 HO 0.41860 28
O3' OH -0.65410 29
H3T HO 0.43760 30
[ bonds ]
H5T O5'
O5' C5'
C5' H5'1
C5' H5'2
C5' C4'
C4' H4'
C4' O4'
C4' C3'
O4' C1'
C1' H1'
C1' N1
C1' C2'
N1 C6
N1 C2
C6 H6
C6 C5
C5 H5
C5 C4
C4 N4
C4 N3
N4 H41
N4 H42
N3 C2
C2 O2
C3' H3'
C3' C2'
C3' O3'
C2' H2'1
C2' O2'
O2' HO'2
O3' H3T
[ impropers ]
C2 C6 N1 C1'
N1 N3 C2 O2
C4 H41 N4 H42
N1 C5 C6 H6
C6 C4 C5 H5
C5 N4 C4 N3
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