1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Cross, C.W. Rice, J.S. Gao, X. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C10 H14 N5 O7 P 347.221 y ADENOSINE-5'-MONOPHOSPHATE RNA linking C9 H14 N3 O8 P 323.197 y CYTIDINE-5'-MONOPHOSPHATE RNA linking C9 H14 N3 O7 P 307.197 y 2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O7 P 347.221 y 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE DNA linking C10 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA linking C10 H14 N5 O8 P 363.221 y GUANOSINE-5'-MONOPHOSPHATE RNA linking C11 H16 N2 O5 256.255 n 5'-METHYLTHYMIDINE DNA linking C10 H15 N2 O7 P S 338.274 n 3'-THIO-THYMIDINE-5'-PHOSPHATE DNA linking N 1 N O N 2 N P N 3 N O N 4 N O N 5 N O N 6 N C N 7 R C N 8 N O N 9 S C N 10 N O N 11 R C N 12 N O N 13 R C Y 14 N N Y 15 N C Y 16 N N Y 17 N C Y 18 N C N 19 N N Y 20 N N Y 21 N C Y 22 N N Y 23 N C N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N O N 39 N P N 40 N O N 41 N O N 42 N O N 43 N C N 44 R C N 45 N O N 46 S C N 47 N O N 48 R C N 49 N O N 50 R C N 51 N N N 52 N C N 53 N O N 54 N N N 55 N C N 56 N N N 57 N C N 58 N C N 59 N H N 60 N H N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N O N 74 N P N 75 N O N 76 N O N 77 N O N 78 N C N 79 R C N 80 N O N 81 S C N 82 N O N 83 N C N 84 R C N 85 N N N 86 N C N 87 N O N 88 N N N 89 N C N 90 N N N 91 N C N 92 N C N 93 N H N 94 N H N 95 N H N 96 N H N 97 N H N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N O N 108 N P N 109 N O N 110 N O N 111 N O N 112 N C N 113 R C N 114 N O N 115 S C N 116 N O N 117 N C N 118 R C Y 119 N N Y 120 N C Y 121 N N Y 122 N C N 123 N C N 124 N O N 125 N N N 126 N C N 127 N N N 128 N N Y 129 N C N 130 N H N 131 N H N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N O N 145 N P N 146 N O N 147 N O N 148 N O N 149 N C N 150 R C N 151 N O N 152 S C N 153 N O N 154 N C N 155 R C N 156 N N N 157 N C N 158 N O N 159 N N N 160 N C N 161 N O N 162 N C N 163 N C N 164 N C N 165 N H N 166 N H N 167 N H N 168 N H N 169 N H N 170 N H N 171 N H N 172 N H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N H N 178 N H N 179 N H N 180 N O N 181 N P N 182 N O N 183 N O N 184 N O N 185 N C N 186 R C N 187 N O N 188 S C N 189 N O N 190 R C N 191 N O N 192 R C Y 193 N N Y 194 N C Y 195 N N Y 196 N C N 197 N C N 198 N O N 199 N N N 200 N C N 201 N N N 202 N N Y 203 N C N 204 N H N 205 N H N 206 N H N 207 N H N 208 N H N 209 N H N 210 N H N 211 N H N 212 N H N 213 N H N 214 N H N 215 N H N 216 N H N 217 N H N 218 N C N 219 N O N 220 N C N 221 R C N 222 N O N 223 S C N 224 N O N 225 N C N 226 R C N 227 N N N 228 N C N 229 N O N 230 N N N 231 N C N 232 N O N 233 N C N 234 N C N 235 N C N 236 N H N 237 N H N 238 N H N 239 N H N 240 N H N 241 N H N 242 N H N 243 N H N 244 N H N 245 N H N 246 N H N 247 N H N 248 N H N 249 N H N 250 N H N 251 N H N 252 N P N 253 N O N 254 N O N 255 N O N 256 N O N 257 N C N 258 R C N 259 N O N 260 S C N 261 N S N 262 N C N 263 R C N 264 N N N 265 N C N 266 N O N 267 N N N 268 N C N 269 N O N 270 N C N 271 N C N 272 N C N 273 N H N 274 N H N 275 N H N 276 N H N 277 N H N 278 N H N 279 N H N 280 N H N 281 N H N 282 N H N 283 N H N 284 N H N 285 N H N 286 N H N 287 N H N 1 N sing N 2 N sing N 3 N doub N 4 N sing N 5 N sing N 6 N sing N 7 N sing N 8 N sing N 9 N sing N 10 N sing N 11 N sing N 12 N sing N 13 N sing N 14 N sing N 15 N sing N 16 N sing N 17 N sing N 18 N sing N 19 N sing N 20 N sing N 21 N sing N 22 N sing N 23 N sing N 24 N sing Y 25 N sing Y 26 N sing Y 27 N doub N 28 N sing Y 29 N sing Y 30 N sing Y 31 N doub N 32 N sing Y 33 N doub N 34 N sing N 35 N sing Y 36 N sing Y 37 N doub N 38 N sing Y 39 N sing N 40 N sing N 41 N sing N 42 N doub N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N sing N 65 N sing N 66 N doub N 67 N sing N 68 N doub N 69 N sing N 70 N sing N 71 N sing N 72 N sing N 73 N doub N 74 N sing N 75 N sing N 76 N sing N 77 N sing N 78 N doub N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N doub N 102 N sing N 103 N doub N 104 N sing N 105 N sing N 106 N sing N 107 N sing N 108 N doub N 109 N sing N 110 N sing N 111 N sing N 112 N sing N 113 N doub N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing Y 134 N sing Y 135 N sing Y 136 N doub N 137 N sing Y 138 N sing N 139 N sing Y 140 N doub N 141 N doub N 142 N sing N 143 N sing N 144 N sing N 145 N sing N 146 N doub N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N doub N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N doub N 176 N sing N 177 N sing N 178 N sing N 179 N doub N 180 N sing N 181 N sing N 182 N doub N 183 N sing N 184 N sing N 185 N sing N 186 N sing N 187 N sing N 188 N sing N 189 N doub N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N sing N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing Y 211 N sing Y 212 N sing Y 213 N doub N 214 N sing Y 215 N sing N 216 N sing Y 217 N doub N 218 N doub N 219 N sing N 220 N sing N 221 N sing N 222 N sing N 223 N doub N 224 N sing N 225 N sing N 226 N sing N 227 N sing N 228 N sing N 229 N sing N 230 N sing N 231 N sing N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N sing N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N sing N 243 N sing N 244 N sing N 245 N sing N 246 N sing N 247 N sing N 248 N sing N 249 N sing N 250 N doub N 251 N sing N 252 N sing N 253 N sing N 254 N doub N 255 N sing N 256 N sing N 257 N doub N 258 N sing N 259 N sing N 260 N sing N 261 N sing N 262 N doub N 263 N sing N 264 N sing N 265 N sing N 266 N sing N 267 N sing N 268 N sing N 269 N sing N 270 N sing N 271 N sing N 272 N sing N 273 N sing N 274 N sing N 275 N sing N 276 N sing N 277 N sing N 278 N sing N 279 N sing N 280 N sing N 281 N sing N 282 N sing N 283 N sing N 284 N sing N 285 N sing N 286 N sing N 287 N doub N 288 N sing N 289 N sing N 290 N sing N 291 N doub N 292 N sing N 293 N sing N 294 N doub N 295 N sing N 296 N sing N 297 N sing N 298 N sing US Biochemistry BICHAW 0033 0006-2960 36 4096 4107 10.1021/bi962382k 9100003 Solution structure of an RNA x DNA hybrid duplex containing a 3'-thioformacetal linker and an RNA A-tract. 1997 10.2210/pdb1ac3/pdb pdb_00001ac3 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 T6-3'-THIOFORMACETAL IN THE DNA STRAND 3595.477 ANTISENSE HYBRID DUPLEX 1 syn polymer T6-3'-THIOFORMACETAL IN THE DNA STRAND 3873.416 DNA (5'-D(*(TCP)P*TP*GP*CP*GP*C)-3') 1 syn polymer no yes (DC)(DG)(DC)(DG)(DT)(TSP)(TCP)(DT)(DG)(DC)(DG)(DC) CGCGTTTTGCGC A polydeoxyribonucleotide no no GCGCAAAACGCG GCGCAAAACGCG B polyribonucleotide n n n n n n n n n n n n n n n n n n n n n n n n 34.708 1 19 A 1 B 24 -1.494 A_DC1:G24_B 1 -30.013 0.059 -0.455 0.038 13.060 1 19 A 2 B 23 1.480 A_DG2:C23_B 2 -20.635 -0.181 -0.163 -0.129 12.470 1 19 A 3 B 22 0.242 A_DC3:G22_B 3 -25.130 -0.256 -0.291 -0.064 -1.280 1 19 A 4 B 21 -2.686 A_DG4:C21_B 4 -13.479 -0.594 0.176 -0.232 6.797 1 20 A 5 B 20 -2.508 A_DT5:A20_B 5 -5.567 0.128 0.456 -0.122 24.486 1 20 A 6 B 19 0.547 A_TSP6:A19_B 6 -19.176 0.296 -0.618 -0.055 29.194 1 20 A 7 B 18 -1.958 A_TCP7:A18_B 7 -16.153 -0.121 -0.582 0.053 28.838 1 20 A 8 B 17 2.636 A_DT8:A17_B 8 -24.896 0.254 -0.910 -0.046 7.700 1 19 A 9 B 16 -0.305 A_DG9:C16_B 9 -20.205 -0.586 -0.049 -0.231 8.066 1 19 A 10 B 15 -2.261 A_DC10:G15_B 10 -24.822 0.115 0.096 -0.114 2.601 1 19 A 11 B 14 -3.728 A_DG11:C14_B 11 -19.467 -0.166 0.462 -0.157 11.488 1 19 A 12 B 13 -4.690 A_DC12:G13_B 12 -19.945 0.172 0.428 -0.166 1.791 42.778 A A 1 2 41.580 B B 24 23 3.610 27.824 -0.587 -1.627 AA_DC1DG2:C23G24_BB 1 -7.966 11.904 31.845 -4.908 0.038 2.873 29.893 A A 2 3 7.160 B B 23 22 3.085 3.669 -0.337 -1.701 AA_DG2DC3:G22C23_BB 2 -4.829 9.425 29.285 -3.997 -0.269 1.575 36.290 A A 3 4 37.989 B B 22 21 3.321 21.906 -0.245 -1.794 AA_DC3DG4:C21G22_BB 3 -7.803 13.533 28.055 -5.495 -0.538 2.777 31.324 A A 4 5 9.537 B B 21 20 3.119 5.113 -0.064 -1.784 AA_DG4DT5:A20C21_BB 4 -4.103 7.653 30.647 -4.184 -0.587 2.738 31.601 A A 5 6 -1.003 B B 20 19 2.734 -0.544 0.105 -1.355 AA_DT5TSP6:A19A20_BB 5 5.224 -9.635 31.172 -2.404 0.623 2.879 32.751 A A 6 7 18.131 B B 19 18 3.305 10.061 -0.351 -0.963 AA_TSP6TCP7:A18A19_BB 6 -1.804 3.251 31.156 -3.391 0.321 2.999 34.593 A A 7 8 14.172 B B 18 17 3.322 8.349 -0.379 -0.958 AA_TCP7DT8:A17A18_BB 7 0.480 -0.815 33.597 -2.875 0.710 1.578 38.317 A A 8 9 45.781 B B 17 16 3.653 26.869 -0.384 -1.470 AA_DT8DG9:C16A17_BB 8 -9.305 15.854 25.954 -5.501 -0.544 2.874 35.956 A A 9 10 10.016 B B 16 15 3.068 6.142 -0.347 -1.035 AA_DG9DC10:G15C16_BB 9 -4.125 6.727 35.212 -2.482 0.021 2.269 34.274 A A 10 11 27.140 B B 15 14 3.119 15.409 -0.163 -1.202 AA_DC10DG11:C14G15_BB 10 -4.195 7.389 30.425 -4.162 -0.301 2.975 34.519 A A 11 12 -0.962 B B 14 13 2.973 -0.570 0.080 -1.137 AA_DG11DC12:G13C14_BB 11 -2.914 4.917 34.394 -1.835 -0.546 chem_comp ndb_struct_na_base_pair ndb_struct_na_base_pair_step pdbx_database_status pdbx_struct_assembly pdbx_struct_oper_list struct_conn struct_keywords entity_poly pdbx_struct_assembly pdbx_struct_assembly_gen chem_comp_atom chem_comp_bond database_2 struct_conn repository Initial release Version format compliance Version format compliance Data collection Derived calculations Other Structure summary Derived calculations Polymer sequence Data collection Database references Derived calculations 1 0 1997-06-16 1 1 2008-03-24 1 2 2011-07-13 1 3 2019-07-31 2 0 2020-07-22 2 1 2024-04-10 _chem_comp.type _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair_step.tilt _pdbx_database_status.process_site _struct_conn.pdbx_leaving_atom_flag _struct_keywords.text _entity_poly.pdbx_seq_one_letter_code_can _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id Y BNL 1997-02-11 REL IONIC_STRENGTH: 0.1 M NACL, 10 MM PO4 PRESSURE: 1 SOLVENT SYSTEM: AQUEOUS THE STRUCTURE WAS DETERMINED USING PROTON-PROTON AND PROTON-PHOSPHOROUS 1D AND 2D NMR SPECTROSCOPY. IDEAL GEOMETRY, NOE VIOLATIONS, COORDINATE RMSD 10 8 NOESY DQF-COSY 7.0 298 K 7.0 288 K 1. GENERATE DISTANCE RESTRAINTS USING MARDIGRAS PROGRAM FROM T. JAMES' LAB. 2. MODEL BUILDING T. JAMES' LAB.USING QUANTA. 3. RANDOMIZE STRUCTURES BY DYNAMICS SIMULATIONS. 4. ITERATIVE CALCULATIONS. 5. FINAL RELAXATION MATRIX REFINEMENT. SIMULATED ANNEALING, MOLECULAR DYNAMICS SIMULATIONS AND RELAXATION MATRIX REFINEMENT BRUNGER refinement X-PLOR structure solution X-PLOR 600 Bruker AMX-II C 1 n 1 DC 1 A G 2 n 2 DG 2 A C 3 n 3 DC 3 A G 4 n 4 DG 4 A T 5 n 5 DT 5 A TSP 6 n 6 TSP 6 A TCP 7 n 7 TCP 7 A T 8 n 8 DT 8 A G 9 n 9 DG 9 A C 10 n 10 DC 10 A G 11 n 11 DG 11 A C 12 n 12 DC 12 A G 13 n 1 G 13 B C 14 n 2 C 14 B G 15 n 3 G 15 B C 16 n 4 C 16 B A 17 n 5 A 17 B A 18 n 6 A 18 B A 19 n 7 A 19 B A 20 n 8 A 20 B C 21 n 9 C 21 B G 22 n 10 G 22 B C 23 n 11 C 23 B G 24 n 12 G 24 B author_defined_assembly 2 dimeric A TSP 6 3'-THIO-THYMIDINE-5'-PHOSPHATE A TSP 6 T A TCP 7 5'-METHYLTHYMIDINE A TCP 7 DT 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 identity operation 0.0000000000 0.0000000000 0.0000000000 2 B G 15 0.075 SIDE CHAIN 3 B C 21 0.060 SIDE CHAIN 6 B C 21 0.069 SIDE CHAIN 7 B C 21 0.070 SIDE CHAIN 1 5.27 0.30 108.30 113.57 A A A O4' C1' N1 DC DC DC 1 1 1 N 1 3.05 0.30 108.30 111.35 A A A O4' C1' N9 DG DG DG 2 2 2 N 1 4.64 0.30 108.30 112.94 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 4.24 0.30 108.30 112.54 A A A O4' C1' N9 DG DG DG 4 4 4 N 1 4.41 0.30 108.30 112.71 A A A O4' C1' N1 DT DT DT 5 5 5 N 1 2.98 0.30 108.30 111.28 A A A O4' C1' N9 DG DG DG 9 9 9 N 1 3.44 0.30 108.30 111.74 A A A O4' C1' N1 DC DC DC 10 10 10 N 1 2.83 0.30 108.30 111.13 A A A O4' C1' N9 DG DG DG 11 11 11 N 1 3.44 0.30 108.30 111.74 A A A O4' C1' N1 DC DC DC 12 12 12 N 1 4.70 0.70 108.50 113.20 B B B O4' C1' N1 C C C 14 14 14 N 1 4.93 0.70 108.50 113.43 B B B O4' C1' N1 C C C 16 16 16 N 1 5.13 0.70 108.50 113.63 B B B O4' C1' N9 A A A 19 19 19 N 1 4.60 0.70 108.50 113.10 B B B O4' C1' N1 C C C 21 21 21 N 1 5.99 0.70 108.50 114.49 B B B O4' C1' N1 C C C 23 23 23 N 2 5.08 0.30 108.30 113.38 A A A O4' C1' N1 DC DC DC 1 1 1 N 2 3.05 0.30 108.30 111.35 A A A O4' C1' N9 DG DG DG 2 2 2 N 2 4.64 0.30 108.30 112.94 A A A O4' C1' N1 DC DC DC 3 3 3 N 2 3.72 0.30 108.30 112.02 A A A O4' C1' N9 DG DG DG 4 4 4 N 2 3.98 0.30 108.30 112.28 A A A O4' C1' N1 DT DT DT 5 5 5 N 2 3.03 0.30 108.30 111.33 A A A O4' C1' N9 DG DG DG 9 9 9 N 2 3.95 0.30 108.30 112.25 A A A O4' C1' N1 DC DC DC 10 10 10 N 2 2.85 0.30 108.30 111.15 A A A O4' C1' N9 DG DG DG 11 11 11 N 2 3.82 0.30 108.30 112.12 A A A O4' C1' N1 DC DC DC 12 12 12 N 2 5.23 0.70 108.50 113.73 B B B O4' C1' N1 C C C 14 14 14 N 2 4.45 0.70 108.50 112.95 B B B O4' C1' N1 C C C 16 16 16 N 2 5.11 0.70 108.50 113.61 B B B O4' C1' N9 A A A 19 19 19 N 2 4.75 0.70 108.50 113.25 B B B O4' C1' N1 C C C 21 21 21 N 2 5.93 0.70 108.50 114.43 B B B O4' C1' N1 C C C 23 23 23 N 3 5.38 0.30 108.30 113.68 A A A O4' C1' N1 DC DC DC 1 1 1 N 3 3.11 0.30 108.30 111.41 A A A O4' C1' N9 DG DG DG 2 2 2 N 3 5.16 0.30 108.30 113.46 A A A O4' C1' N1 DC DC DC 3 3 3 N 3 3.34 0.30 108.30 111.64 A A A O4' C1' N9 DG DG DG 4 4 4 N 3 4.01 0.30 108.30 112.31 A A A O4' C1' N1 DT DT DT 5 5 5 N 3 3.34 0.30 108.30 111.64 A A A O4' C1' N9 DG DG DG 9 9 9 N 3 3.90 0.30 108.30 112.20 A A A O4' C1' N1 DC DC DC 10 10 10 N 3 2.35 0.30 108.30 110.65 A A A O4' C1' N9 DG DG DG 11 11 11 N 3 3.21 0.30 108.30 111.51 A A A O4' C1' N1 DC DC DC 12 12 12 N 3 5.19 0.70 108.50 113.69 B B B O4' C1' N1 C C C 14 14 14 N 3 5.46 0.70 108.50 113.96 B B B O4' C1' N1 C C C 16 16 16 N 3 4.95 0.70 108.50 113.45 B B B O4' C1' N9 A A A 19 19 19 N 3 4.42 0.70 108.50 112.92 B B B O4' C1' N1 C C C 21 21 21 N 3 6.05 0.70 108.50 114.55 B B B O4' C1' N1 C C C 23 23 23 N 4 5.42 0.30 108.30 113.72 A A A O4' C1' N1 DC DC DC 1 1 1 N 4 2.99 0.30 108.30 111.29 A A A O4' C1' N9 DG DG DG 2 2 2 N 4 4.72 0.30 108.30 113.02 A A A O4' C1' N1 DC DC DC 3 3 3 N 4 3.15 0.30 108.30 111.45 A A A O4' C1' N9 DG DG DG 4 4 4 N 4 4.15 0.30 108.30 112.45 A A A O4' C1' N1 DT DT DT 5 5 5 N 4 3.58 0.30 108.30 111.88 A A A O4' C1' N9 DG DG DG 9 9 9 N 4 4.39 0.30 108.30 112.69 A A A O4' C1' N1 DC DC DC 10 10 10 N 4 2.77 0.30 108.30 111.07 A A A O4' C1' N9 DG DG DG 11 11 11 N 4 3.60 0.30 108.30 111.90 A A A O4' C1' N1 DC DC DC 12 12 12 N 4 4.82 0.70 108.50 113.32 B B B O4' C1' N1 C C C 14 14 14 N 4 4.98 0.70 108.50 113.48 B B B O4' C1' N1 C C C 16 16 16 N 4 4.96 0.70 108.50 113.46 B B B O4' C1' N9 A A A 19 19 19 N 4 4.67 0.70 108.50 113.17 B B B O4' C1' N1 C C C 21 21 21 N 4 5.74 0.70 108.50 114.24 B B B O4' C1' N1 C C C 23 23 23 N 5 5.45 0.30 108.30 113.75 A A A O4' C1' N1 DC DC DC 1 1 1 N 5 3.45 0.30 108.30 111.75 A A A O4' C1' N9 DG DG DG 2 2 2 N 5 4.96 0.30 108.30 113.26 A A A O4' C1' N1 DC DC DC 3 3 3 N 5 3.28 0.30 108.30 111.58 A A A O4' C1' N9 DG DG DG 4 4 4 N 5 3.36 0.30 108.30 111.66 A A A O4' C1' N1 DT DT DT 5 5 5 N 5 3.50 0.30 108.30 111.80 A A A O4' C1' N9 DG DG DG 9 9 9 N 5 3.95 0.30 108.30 112.25 A A A O4' C1' N1 DC DC DC 10 10 10 N 5 2.18 0.30 108.30 110.48 A A A O4' C1' N9 DG DG DG 11 11 11 N 5 2.87 0.30 108.30 111.17 A A A O4' C1' N1 DC DC DC 12 12 12 N 5 4.99 0.70 108.50 113.49 B B B O4' C1' N1 C C C 14 14 14 N 5 4.85 0.70 108.50 113.35 B B B O4' C1' N1 C C C 16 16 16 N 5 4.80 0.70 108.50 113.30 B B B O4' C1' N9 A A A 19 19 19 N 5 4.28 0.70 108.50 112.78 B B B O4' C1' N1 C C C 21 21 21 N 5 5.81 0.70 108.50 114.31 B B B O4' C1' N1 C C C 23 23 23 N 6 5.28 0.30 108.30 113.58 A A A O4' C1' N1 DC DC DC 1 1 1 N 6 3.14 0.30 108.30 111.44 A A A O4' C1' N9 DG DG DG 2 2 2 N 6 4.92 0.30 108.30 113.22 A A A O4' C1' N1 DC DC DC 3 3 3 N 6 3.51 0.30 108.30 111.81 A A A O4' C1' N9 DG DG DG 4 4 4 N 6 3.88 0.30 108.30 112.18 A A A O4' C1' N1 DT DT DT 5 5 5 N 6 2.99 0.30 108.30 111.29 A A A O4' C1' N9 DG DG DG 9 9 9 N 6 3.05 0.30 108.30 111.35 A A A O4' C1' N1 DC DC DC 10 10 10 N 6 2.94 0.30 108.30 111.24 A A A O4' C1' N9 DG DG DG 11 11 11 N 6 3.87 0.30 108.30 112.17 A A A O4' C1' N1 DC DC DC 12 12 12 N 6 4.94 0.70 108.50 113.44 B B B O4' C1' N1 C C C 14 14 14 N 6 5.34 0.70 108.50 113.84 B B B O4' C1' N1 C C C 16 16 16 N 6 4.66 0.70 108.50 113.16 B B B O4' C1' N9 A A A 19 19 19 N 6 4.50 0.70 108.50 113.00 B B B O4' C1' N1 C C C 21 21 21 N 6 5.61 0.70 108.50 114.11 B B B O4' C1' N1 C C C 23 23 23 N 7 5.17 0.30 108.30 113.47 A A A O4' C1' N1 DC DC DC 1 1 1 N 7 3.36 0.30 108.30 111.66 A A A O4' C1' N9 DG DG DG 2 2 2 N 7 4.66 0.30 108.30 112.96 A A A O4' C1' N1 DC DC DC 3 3 3 N 7 3.25 0.30 108.30 111.55 A A A O4' C1' N9 DG DG DG 4 4 4 N 7 4.07 0.30 108.30 112.37 A A A O4' C1' N1 DT DT DT 5 5 5 N 7 3.23 0.30 108.30 111.53 A A A O4' C1' N9 DG DG DG 9 9 9 N 7 3.63 0.30 108.30 111.93 A A A O4' C1' N1 DC DC DC 10 10 10 N 7 3.10 0.30 108.30 111.40 A A A O4' C1' N9 DG DG DG 11 11 11 N 7 3.45 0.30 108.30 111.75 A A A O4' C1' N1 DC DC DC 12 12 12 N 7 4.66 0.70 108.50 113.16 B B B O4' C1' N1 C C C 14 14 14 N 7 4.87 0.70 108.50 113.37 B B B O4' C1' N1 C C C 16 16 16 N 7 4.65 0.70 108.50 113.15 B B B O4' C1' N9 A A A 19 19 19 N 7 4.72 0.70 108.50 113.22 B B B O4' C1' N1 C C C 21 21 21 N 7 5.40 0.70 108.50 113.90 B B B O4' C1' N1 C C C 23 23 23 N 8 4.56 0.30 108.30 112.86 A A A O4' C1' N1 DC DC DC 1 1 1 N 8 3.53 0.30 108.30 111.83 A A A O4' C1' N9 DG DG DG 2 2 2 N 8 4.34 0.30 108.30 112.64 A A A O4' C1' N1 DC DC DC 3 3 3 N 8 3.72 0.30 108.30 112.02 A A A O4' C1' N9 DG DG DG 4 4 4 N 8 4.44 0.30 108.30 112.74 A A A O4' C1' N1 DT DT DT 5 5 5 N 8 3.66 0.30 108.30 111.96 A A A O4' C1' N9 DG DG DG 9 9 9 N 8 3.66 0.30 108.30 111.96 A A A O4' C1' N1 DC DC DC 10 10 10 N 8 2.87 0.30 108.30 111.17 A A A O4' C1' N9 DG DG DG 11 11 11 N 8 2.54 0.30 108.30 110.84 A A A O4' C1' N1 DC DC DC 12 12 12 N 8 4.23 0.70 108.50 112.73 B B B O4' C1' N9 G G G 13 13 13 N 8 4.81 0.70 108.50 113.31 B B B O4' C1' N1 C C C 14 14 14 N 8 4.65 0.70 108.50 113.15 B B B O4' C1' N1 C C C 16 16 16 N 8 5.07 0.70 108.50 113.57 B B B O4' C1' N9 A A A 19 19 19 N 8 4.72 0.70 108.50 113.22 B B B O4' C1' N1 C C C 21 21 21 N 8 5.39 0.70 108.50 113.89 B B B O4' C1' N1 C C C 23 23 23 N model building X-PLOR refinement X-PLOR phasing X-PLOR SOLUTION STRUCTURE OF AN RNA-DNA HYBRID DUPLEX CONTAINING A 3'-THIOFORMACETAL LINKER AND AN RNA A-TRACT, NMR, 8 STRUCTURES 1 N N 2 N N covale 1.610 both A DT 5 A O3' DT 5 1_555 A TSP 6 A P TSP 6 1_555 covale 1.810 none A TSP 6 A S3' TSP 6 1_555 A TCP 7 A CP TCP 7 1_555 covale 1.610 both A TCP 7 A O3' TCP 7 1_555 A DT 8 A P DT 8 1_555 hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 B G 24 B N1 G 12 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 B G 24 B O6 G 12 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 B G 24 B N2 G 12 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B C 23 B N3 C 11 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B C 23 B O2 C 11 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B C 23 B N4 C 11 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 B G 22 B N1 G 10 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 B G 22 B O6 G 10 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 B G 22 B N2 G 10 1_555 hydrog WATSON-CRICK A DG 4 A N1 DG 4 1_555 B C 21 B N3 C 9 1_555 hydrog WATSON-CRICK A DG 4 A N2 DG 4 1_555 B C 21 B O2 C 9 1_555 hydrog WATSON-CRICK A DG 4 A O6 DG 4 1_555 B C 21 B N4 C 9 1_555 hydrog WATSON-CRICK A DT 5 A N3 DT 5 1_555 B A 20 B N1 A 8 1_555 hydrog WATSON-CRICK A DT 5 A O4 DT 5 1_555 B A 20 B N6 A 8 1_555 hydrog WATSON-CRICK A TSP 6 A N3 TSP 6 1_555 B A 19 B N1 A 7 1_555 hydrog WATSON-CRICK A TSP 6 A O4 TSP 6 1_555 B A 19 B N6 A 7 1_555 hydrog WATSON-CRICK A TCP 7 A N3 TCP 7 1_555 B A 18 B N1 A 6 1_555 hydrog WATSON-CRICK A TCP 7 A O4 TCP 7 1_555 B A 18 B N6 A 6 1_555 hydrog WATSON-CRICK A DT 8 A N3 DT 8 1_555 B A 17 B N1 A 5 1_555 hydrog WATSON-CRICK A DT 8 A O4 DT 8 1_555 B A 17 B N6 A 5 1_555 hydrog WATSON-CRICK A DG 9 A N1 DG 9 1_555 B C 16 B N3 C 4 1_555 hydrog WATSON-CRICK A DG 9 A N2 DG 9 1_555 B C 16 B O2 C 4 1_555 hydrog WATSON-CRICK A DG 9 A O6 DG 9 1_555 B C 16 B N4 C 4 1_555 hydrog WATSON-CRICK A DC 10 A N3 DC 10 1_555 B G 15 B N1 G 3 1_555 hydrog WATSON-CRICK A DC 10 A N4 DC 10 1_555 B G 15 B O6 G 3 1_555 hydrog WATSON-CRICK A DC 10 A O2 DC 10 1_555 B G 15 B N2 G 3 1_555 hydrog WATSON-CRICK A DG 11 A N1 DG 11 1_555 B C 14 B N3 C 2 1_555 hydrog WATSON-CRICK A DG 11 A N2 DG 11 1_555 B C 14 B O2 C 2 1_555 hydrog WATSON-CRICK A DG 11 A O6 DG 11 1_555 B C 14 B N4 C 2 1_555 hydrog WATSON-CRICK A DC 12 A N3 DC 12 1_555 B G 13 B N1 G 1 1_555 hydrog WATSON-CRICK A DC 12 A N4 DC 12 1_555 B G 13 B O6 G 1 1_555 hydrog WATSON-CRICK A DC 12 A O2 DC 12 1_555 B G 13 B N2 G 1 1_555 DNA-RNA HYBRID RNA, DNA, ANTISENSE OLIGONUCLEOTIDES, THIOFORMACETAL BACKBONE MODIFICATION, HYBRID DUPLEX, DNA-RNA HYBRID COMPLEX, DNA-RNA HYBRID 1AC3 PDB 1 1AC3 1AC3 PDB 2 1AC3 1 12 1AC3 1 12 1AC3 A 1 1 12 13 24 1AC3 13 24 1AC3 B 2 1 12 1 P 1