ID code: '1TRJ' CHIRALITY (03 Nov 1998) Checks the chirality and the naming of substituents of chiral and prochiral centers in nucleic acid structures. The molecular structure is read from a PDB file. Only the first model is evaluated. ---------------------------------------------------------- Center Reference for correct naming ---------------------------------------------------------- C1' alpha/beta nomenclature of anomeric sugars, base in beta position in natural nucleosids. C2' IUPAC. 1983. Eur J Biochem, 131: 9-15. C3' IUPAC. 1983. Eur J Biochem, 131: 9-15. C4' IUPAC. 1983. Eur J Biochem, 131: 9-15. C5' IUPAC. 1983. Eur J Biochem, 131: 9-15. P Brookhaven PDB entry '1BNA', O1P -> major groove, O2P -> minor groove. ---------------------------------------------------------- Author: Peter Slickers (slickers@imb-jena.de) Biocomputing, IMB Jena, Germany --------------------------------------------------------------------------------- Seq No Atom Residue H1' base O4' H1' base C2' --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- --------------------------------------------------------------------------------------------------------------------- Seq No Atom Residue Deoxyribose Ribose C1' C3' H2'1 H2'2 H2' O2' H2'1 H2'2 H2' O2' --------------------------------------------------------------------------------------------------------------------- --------------------------------------------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H3' O3' C4' H3' O3' C2' --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H4' C5' C3' H4' C5' O4' --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue H5'1 H5'2 O5' H5'1 H5'2 C4' --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- --------------------------------------------------------------------------------- Seq No Atom Residue O1P O2P O3' O1P O2P O5' --------------------------------------------------------------------------------- 1 P C B1115 2 P C B1116 3 P G B1117 4 P C B1118 5 P C B1119 6 P G B1120 7 P U B1121 8 P U B1122 9 P A B1123 10 P G B1124 11 P U B1125 12 P U B1126 13 P G B1127 14 P C B1128 15 P C B1129 16 P A B1130 17 P G B1131 18 P C B1132 19 P G B1133 20 P G B1134 21 P U B1135 22 P U B1136 23 P C B1137 24 P G B1138 25 P G B1139 26 P C B1140 27 P C B1141 28 P G B1142 29 P G B1143 30 P G B1144 31 P C B1145 32 P A B1146 33 P C B1147 34 P U B1148 35 P C B1149 36 P U B1150 37 P A B1151 38 P A B1152 39 P C B1153 40 P G B1154 41 P G B1155 43 P G C1156 44 P A C1157 45 P C C1158 46 P U C1159 47 P G C1160 48 P C C1161 49 P C C1162 50 P C C1163 51 P G C1164 52 P C C1165 53 P G C1166 54 P A C1167 55 P A C1168 56 P A C1169 57 P G C1171 58 P C C1172 59 P G C1173 60 P G C1174 61 P G C1175 62 P A C1176 63 P G C1177 64 P G C1178 65 P A C1179 66 P A C1180 67 P G C1181 68 P G C1182 69 P A C1183 ---------------------------------------------------------------------------------