0.028731 0.000000 0.000000 0.000000 0.021183 0.000000 0.000000 0.000000 0.004400 0.00000 0.00000 0.00000 Pikovskaya, O. Polonskaia, A. Patel, D.J. Serganov, A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 34.806 47.208 227.279 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 H13 N3 O10 P2 385.161 n CYTIDINE-5'-PHOSPHATE-2',3'-CYCLIC PHOSPHATE RNA linking C10 H14 N5 O8 P 363.221 y GUANOSINE-5'-MONOPHOSPHATE RNA linking C10 H13 N5 O5 283.241 GUANOSINE non-polymer C10 H16 N5 O14 P3 523.180 n GUANOSINE-5'-TRIPHOSPHATE non-polymer H2 O 18.015 WATER non-polymer Mg 2 24.305 MAGNESIUM ION non-polymer C4 H6 O4 118.088 SUCCINIC ACID non-polymer O4 S -2 96.063 SULFATE ION non-polymer C9 H13 N2 O9 P 324.181 y URIDINE-5'-MONOPHOSPHATE RNA 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 S P N 74 N O N 75 N O N 76 N P N 77 N O N 78 N O N 79 N O N 80 N O N 81 N C N 82 R C N 83 N O N 84 R C N 85 N O N 86 R C N 87 N O N 88 R C N 89 N N N 90 N C N 91 N O N 92 N N N 93 N C N 94 N N N 95 N C N 96 N C 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 H N 108 N H N 109 N H N 110 N O N 111 N P N 112 N O N 113 N O N 114 N O N 115 N C N 116 R C N 117 N O N 118 S C N 119 N O N 120 R C N 121 N O N 122 R C Y 123 N N Y 124 N C Y 125 N N Y 126 N C N 127 N C N 128 N O N 129 N N N 130 N C N 131 N N N 132 N N Y 133 N C 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 H N 145 N H N 146 N H N 147 N H 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 R C N 155 N O N 156 R C Y 157 N N Y 158 N C Y 159 N N Y 160 N C N 161 N C N 162 N O N 163 N N N 164 N C N 165 N N N 166 N N Y 167 N C 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 H N 181 N P N 182 N O N 183 N O N 184 N O N 185 N O N 186 N P N 187 N O N 188 N O N 189 N O N 190 N P N 191 N O N 192 N O N 193 N O N 194 N C N 195 R C N 196 N O N 197 S C N 198 N O N 199 R C N 200 N O N 201 R C Y 202 N N Y 203 N C Y 204 N N Y 205 N C N 206 N C N 207 N O N 208 N N N 209 N C N 210 N N N 211 N N Y 212 N C N 213 N H N 214 N H N 215 N H N 216 N H N 217 N H N 218 N H N 219 N H N 220 N H N 221 N H N 222 N H N 223 N H N 224 N H N 225 N H N 226 N H N 227 N H N 228 N H N 229 N O N 230 N H N 231 N H N 232 N MG N 233 N C N 234 N O N 235 N O N 236 N C N 237 N C N 238 N C N 239 N O N 240 N O 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 S N 248 N O N 249 N O N 250 N O N 251 N O N 252 N O N 253 N P 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 O N 262 R C N 263 N O N 264 R C N 265 N N N 266 N C N 267 N O N 268 N N N 269 N C N 270 N O 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 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 doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N doub 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 sing N 102 N sing N 103 N sing N 104 N sing N 105 N doub N 106 N sing N 107 N doub N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N doub N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N doub 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 N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N sing Y 139 N sing Y 140 N sing Y 141 N doub N 142 N sing Y 143 N sing N 144 N sing Y 145 N doub N 146 N doub N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N doub N 152 N sing 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 Y 174 N sing Y 175 N sing Y 176 N doub N 177 N sing Y 178 N sing N 179 N sing Y 180 N doub N 181 N doub N 182 N sing N 183 N sing N 184 N sing N 185 N sing N 186 N doub N 187 N sing N 188 N sing N 189 N sing N 190 N doub 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 doub N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N doub 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 N 211 N sing N 212 N sing N 213 N sing N 214 N sing N 215 N sing N 216 N sing N 217 N sing N 218 N sing N 219 N sing N 220 N sing N 221 N sing N 222 N sing N 223 N sing Y 224 N sing Y 225 N sing Y 226 N doub N 227 N sing Y 228 N sing N 229 N sing Y 230 N doub N 231 N doub N 232 N sing N 233 N sing N 234 N sing N 235 N sing N 236 N doub N 237 N sing N 238 N sing N 239 N sing N 240 N sing N 241 N sing N 242 N doub 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 sing N 251 N sing N 252 N doub N 253 N sing N 254 N sing N 255 N doub N 256 N doub N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N doub N 262 N sing 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 doub N 286 N sing N 287 N sing N 288 N sing N 289 N doub N 290 N sing N 291 N doub N 292 N sing N 293 N sing US Nat.Chem.Biol. 1552-4450 7 748 755 10.1038/nchembio.631 21841796 Structural principles of nucleoside selectivity in a 2'-deoxyguanosine riboswitch. 2011 10.2210/pdb3skz/pdb pdb_00003skz 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 100 1 CCD 2010-04-13 ADSC QUANTUM 315 SINGLE WAVELENGTH M x-ray 1 1.075 1.0 X29A NSLS 1.075 SYNCHROTRON NSLS BEAMLINE X29A dG riboswitch 22018.873 RNA (68-MER) 2 syn polymer in vitro transcribed RNA 283.241 GUANOSINE 2 syn non-polymer 24.305 MAGNESIUM ION 3 syn non-polymer 96.063 SULFATE ION 8 syn non-polymer 118.088 SUCCINIC ACID 1 syn non-polymer 18.015 water 7 nat water no yes (GTP)GCCUUAUACAGGGUAGCAUAAUGGGCUACUGACCCCGCCUUCAAACCUAUUUGGAGACUAUAAGGU(CCC) GGCCUUAUACAGGGUAGCAUAAUGGGCUACUGACCCCGCCUUCAAACCUAUUUGGAGACUAUAAGGUC A,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 n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n n 1 2.12 41.98 VAPOR DIFFUSION, HANGING DROP 5.0 0.05 M Na-succinate, ~3.0 M ammonium sulfate, 0.5 mM spermine and 20 mM magnesium chloride, pH 5.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K 293 -12.906 1 19 A 22 A 89 1.865 A_GTP22:CCC89_A 1 -14.244 -0.892 -0.322 -0.153 11.285 1 28 A 23 A 88 3.092 A_G23:U88_A 2 -12.395 -2.679 0.710 -0.502 7.422 1 19 A 24 A 87 0.801 A_C24:G87_A 3 -21.010 0.092 0.253 -0.259 -10.232 1 19 A 25 A 86 2.334 A_C25:G86_A 4 -11.427 0.385 0.452 -0.107 -0.946 1 20 A 26 A 85 1.317 A_U26:A85_A 5 -5.862 0.280 0.411 0.159 7.242 1 20 A 27 A 84 -2.381 A_U27:A84_A 6 -16.060 0.084 -0.457 -0.055 -17.848 1 20 A 28 A 83 6.552 A_A28:U83_A 7 -15.685 -0.055 -0.224 0.257 -12.391 1 20 A 29 A 82 4.547 A_U29:A82_A 8 -17.913 -0.194 0.306 0.069 11.262 1 20 A 30 A 81 -8.769 A_A30:U81_A 9 -2.621 -0.330 0.490 0.037 -9.282 1 19 A 47 A 39 4.498 A_G47:C39_A 10 -11.199 -0.391 0.304 -0.007 4.858 1 19 A 48 A 38 3.393 A_C48:G38_A 11 -13.362 0.071 0.321 -0.042 -0.809 1 20 A 49 A 37 0.357 A_U49:A37_A 12 -4.429 -0.457 0.114 -0.181 7.074 1 20 A 50 A 36 3.522 A_A50:U36_A 13 -10.175 -0.286 0.136 -0.172 5.352 1 19 A 51 A 35 -1.945 A_C51:G35_A 14 -12.522 0.043 0.203 -0.055 -8.792 1 28 A 52 A 34 1.824 A_U52:G34_A 15 -19.179 1.975 0.299 -0.471 14.083 1 19 A 53 A 60 -3.037 A_G53:C60_A 16 -14.020 -0.020 0.421 -0.133 4.336 1 19 A 31 A 59 -2.226 A_C31:G59_A 17 -12.499 0.583 -0.183 -0.230 -15.962 1 19 A 45 A 69 -3.900 A_G45:C69_A 18 -9.672 -0.618 -0.261 -0.232 -6.626 1 19 A 46 A 68 -0.772 A_G46:C68_A 19 -10.520 -0.395 0.139 -0.171 -8.600 1 20 A 72 A 67 9.713 A_U72:A67_A 20 -10.208 -0.137 -0.261 0.122 -3.971 1 20 A 73 A 66 1.757 A_U73:A66_A 21 -7.691 -0.943 -0.494 0.034 11.079 1 20 A 74 A 65 2.983 A_U74:A65_A 22 -11.314 -0.098 -0.434 -0.206 -10.558 1 19 A 75 A 64 -7.118 A_G75:C64_A 23 -18.893 -0.158 -0.512 -0.227 -1.709 1 28 A 76 A 63 -2.794 A_G76:U63_A 24 0.146 -1.200 0.100 -0.433 1.381 1 20 A 77 A 62 1.445 A_A77:U62_A 25 -12.147 -0.314 0.114 -0.130 -6.365 1 19 A 78 A 61 0.185 A_G78:C61_A 26 -12.072 -0.178 -0.334 -0.100 -2.999 1 19 B 22 B 89 0.837 B_GTP22:CCC89_B 27 -1.175 -0.350 0.003 -0.014 4.173 1 28 B 23 B 88 8.525 B_G23:U88_B 28 -19.242 -2.162 0.201 -0.152 5.792 1 19 B 24 B 87 2.515 B_C24:G87_B 29 -15.317 -0.267 -0.028 -0.099 4.630 1 19 B 25 B 86 -0.255 B_C25:G86_B 30 -8.724 0.135 0.592 0.174 1.139 1 B 26 B 85 14.343 B_U26:A85_B 31 -12.421 -0.100 0.089 0.163 5.676 1 20 B 27 B 84 13.254 B_U27:A84_B 32 -16.510 -0.764 -0.539 -0.126 -5.881 1 20 B 28 B 83 6.142 B_A28:U83_B 33 -4.272 0.112 0.385 0.107 0.513 1 20 B 29 B 82 -2.108 B_U29:A82_B 34 -13.938 -0.176 0.261 -0.086 10.120 1 20 B 30 B 81 1.230 B_A30:U81_B 35 -4.541 0.298 0.783 0.163 -5.067 1 19 B 47 B 39 4.334 B_G47:C39_B 36 -5.307 -0.363 0.361 -0.056 -7.325 1 19 B 48 B 38 6.037 B_C48:G38_B 37 -8.753 0.120 0.666 0.117 -2.476 1 20 B 49 B 37 1.183 B_U49:A37_B 38 -0.677 -0.100 0.385 -0.186 12.711 1 20 B 50 B 36 7.279 B_A50:U36_B 39 -15.991 0.267 0.414 0.156 1.790 1 19 B 51 B 35 4.555 B_C51:G35_B 40 -21.329 0.096 0.219 0.125 -6.671 1 28 B 52 B 34 4.112 B_U52:G34_B 41 -13.916 2.515 0.221 -0.535 16.452 1 19 B 53 B 60 2.108 B_G53:C60_B 42 -10.335 0.207 0.479 -0.109 5.872 1 19 B 31 B 59 -0.257 B_C31:G59_B 43 -10.533 1.179 -0.110 -0.320 -12.908 1 19 B 45 B 69 7.568 B_G45:C69_B 44 12.081 -0.707 -0.201 0.126 -24.009 1 19 B 46 B 68 8.416 B_G46:C68_B 45 -19.250 -0.718 -1.039 0.105 -7.047 1 20 B 72 B 67 7.005 B_U72:A67_B 46 -2.359 0.330 -0.307 0.002 -4.116 1 20 B 73 B 66 -1.188 B_U73:A66_B 47 -3.884 -0.553 -0.496 -0.023 7.170 1 20 B 74 B 65 -2.548 B_U74:A65_B 48 -15.318 -0.057 -0.274 -0.106 -10.332 1 19 B 75 B 64 6.296 B_G75:C64_B 49 -8.720 -1.026 -0.405 -0.147 -4.619 1 28 B 76 B 63 -1.795 B_G76:U63_B 50 -11.474 -1.792 -0.100 -0.519 1.836 1 20 B 77 B 62 1.787 B_A77:U62_B 51 0.070 0.494 0.202 -0.095 3.414 1 19 B 78 B 61 -0.324 B_G78:C61_B 52 -8.936 0.716 0.310 0.262 1.632 26.374 A A 22 23 15.065 A A 89 88 2.407 6.531 -0.063 -1.827 AA_GTP22G23:U88CCC89_AA 1 -12.399 28.601 22.399 -5.174 -2.081 2.891 45.663 A A 23 24 12.705 A A 88 87 3.247 9.791 -0.341 -1.405 AA_G23C24:G87U88_AA 2 0.416 -0.540 44.654 -2.624 0.474 2.820 36.619 A A 24 25 16.803 A A 87 86 3.453 10.420 -0.054 -1.811 AA_C24C25:G86G87_AA 3 -0.821 1.324 35.145 -4.286 -0.025 2.335 25.073 A A 25 26 13.517 A A 86 85 2.839 5.814 -0.428 -1.956 AA_C25U26:A85G86_AA 4 -1.203 2.797 24.370 -5.885 0.701 2.884 32.865 A A 26 27 2.061 A A 85 84 2.938 1.161 0.230 -1.502 AA_U26U27:A84A85_AA 5 5.377 -9.547 32.414 -2.833 0.418 2.412 39.138 A A 27 28 31.820 A A 84 83 3.650 20.333 0.408 -1.411 AA_U27A28:U83A84_AA 6 -2.140 3.350 33.554 -4.559 -0.868 2.734 33.256 A A 28 29 16.065 A A 83 82 3.146 9.083 -0.225 -1.139 AA_A28U29:A82U83_AA 7 -0.726 1.284 32.017 -3.382 0.282 1.957 25.615 A A 29 30 21.305 A A 82 81 2.641 9.227 0.071 -1.430 AA_U29A30:U81A82_AA 8 2.255 -5.207 23.816 -5.132 0.306 2.863 32.945 A A 47 48 2.626 A A 39 38 2.954 1.489 -0.708 -1.430 AA_G47C48:G38C39_AA 9 1.122 -1.980 32.894 -2.746 1.419 2.521 31.516 A A 48 49 21.250 A A 38 37 3.181 11.296 0.216 -1.320 AA_C48U49:A37G38_AA 10 0.914 -1.720 29.457 -4.332 -0.244 2.764 33.699 A A 49 50 10.396 A A 37 36 3.022 5.995 -0.141 -1.250 AA_U49A50:U36A37_AA 11 -1.437 2.492 33.146 -3.027 0.034 2.846 34.768 A A 50 51 10.105 A A 36 35 3.144 6.004 0.046 -1.443 AA_A50C51:G35U36_AA 12 -2.616 4.403 34.164 -3.262 -0.446 3.181 45.836 A A 51 52 11.258 A A 35 34 3.457 8.698 0.718 -1.554 AA_C51U52:G34G35_AA 13 5.851 -7.573 44.684 -2.772 -0.399 2.377 48.120 A A 52 53 5.219 A A 34 60 2.744 4.248 2.900 -2.081 AA_U52G53:C60G34_AA 14 -3.164 3.887 47.845 -2.814 -3.751 3.045 59.662 A A 53 31 9.588 A A 60 59 3.081 9.501 -2.191 -0.782 AA_G53C31:G59C60_AA 15 -3.429 3.460 58.878 -1.235 2.040 2.414 31.839 A A 45 46 12.116 A A 69 68 2.957 6.594 0.153 -2.280 AA_G45G46:C68C69_AA 16 -2.574 4.729 31.063 -5.158 -0.669 3.082 27.540 A A 46 72 3.833 A A 68 67 3.379 1.820 -0.951 -2.621 AA_G46U72:A67C68_AA 17 2.992 -6.302 27.321 -5.947 2.723 2.720 30.102 A A 72 73 17.738 A A 67 66 2.916 9.010 -1.093 -0.771 AA_U72U73:A66A67_AA 18 -6.234 12.274 28.080 -3.129 0.966 3.057 36.564 A A 73 74 2.006 A A 66 65 3.112 1.258 0.421 -1.212 AA_U73U74:A65A66_AA 19 -1.059 1.689 36.528 -2.096 -0.809 2.564 31.192 A A 74 75 28.143 A A 65 64 3.888 14.571 -0.658 -1.957 AA_U74G75:C64A65_AA 20 -0.203 0.392 27.654 -6.549 1.183 2.620 32.013 A A 75 76 7.634 A A 64 63 2.996 4.177 0.243 -2.057 AA_G75G76:U63C64_AA 21 -5.743 10.496 31.236 -4.385 -1.342 3.138 28.303 A A 76 77 4.403 A A 63 62 3.264 2.147 0.204 -1.623 AA_G76A77:U62U63_AA 22 3.029 -6.211 28.064 -3.807 0.272 2.239 32.346 A A 77 78 27.302 A A 62 61 3.407 14.624 1.061 -2.099 AA_A77G78:C61U62_AA 23 4.755 -8.877 28.543 -6.148 -1.131 1.676 26.070 B B 22 23 25.921 B B 89 88 2.883 11.303 -0.015 -2.154 BB_GTP22G23:U88CCC89_BB 24 -2.168 4.972 23.432 -7.050 -0.403 2.911 38.110 B B 23 24 10.375 B B 88 87 3.186 6.741 0.006 -1.332 BB_G23C24:G87U88_BB 25 -0.939 1.445 37.520 -2.842 -0.121 2.451 31.947 B B 24 25 13.262 B B 87 86 3.068 7.219 0.172 -2.244 BB_C24C25:G86G87_BB 26 -4.163 7.647 30.868 -5.201 -0.961 2.306 27.996 B B 25 26 17.097 B B 86 85 2.995 8.137 0.068 -1.931 BB_C25U26:A85G86_BB 27 3.284 -6.901 26.611 -5.594 0.507 2.600 31.962 B B 26 27 19.767 B B 85 84 3.086 10.659 0.089 -0.934 BB_U26U27:A84A85_BB 28 3.909 -7.249 29.927 -3.432 0.475 3.137 41.628 B B 27 28 17.278 B B 84 83 3.532 12.042 0.046 -0.656 BB_U27A28:U83A84_BB 29 -8.133 11.669 39.116 -2.266 -0.971 2.615 33.012 B B 28 29 12.987 B B 83 82 3.072 7.292 -0.056 -1.571 BB_A28U29:A82U83_BB 30 5.271 -9.389 31.795 -3.862 0.891 2.415 30.230 B B 29 30 14.605 B B 82 81 2.862 7.540 0.266 -1.470 BB_U29A30:U81A82_BB 31 -0.169 0.328 29.296 -4.072 -0.538 2.829 34.896 B B 47 48 11.607 B B 39 38 3.216 6.917 0.090 -1.706 BB_G47C48:G38C39_BB 32 0.760 -1.275 34.217 -3.824 -0.042 2.441 32.484 B B 48 49 12.971 B B 38 37 2.840 7.199 -0.559 -1.526 BB_C48U49:A37G38_BB 33 0.120 -0.215 31.697 -3.759 1.017 2.705 31.530 B B 49 50 6.074 B B 37 36 2.838 3.294 0.177 -1.198 BB_U49A50:U36A37_BB 34 0.873 -1.610 31.350 -2.727 -0.187 2.730 34.101 B B 50 51 20.716 B B 36 35 3.328 11.904 0.074 -1.175 BB_A50C51:G35U36_BB 35 1.350 -2.349 31.986 -3.814 0.079 3.075 47.947 B B 51 52 12.216 B B 35 34 3.377 9.857 0.404 -1.325 BB_C51U52:G34G35_BB 36 3.403 -4.218 46.864 -2.409 -0.228 2.467 50.040 B B 52 53 -0.974 B B 34 60 2.685 -0.823 2.825 -1.833 BB_U52G53:C60G34_BB 37 -4.472 5.293 49.847 -2.121 -3.595 3.070 59.522 B B 53 31 12.126 B B 60 59 3.177 11.969 -2.221 -0.617 BB_G53C31:G59C60_BB 38 -1.790 1.814 58.389 -1.204 2.151 1.539 32.318 B B 45 46 35.032 B B 69 68 3.569 18.104 0.109 -2.358 BB_G45G46:C68C69_BB 39 9.137 -17.679 25.297 -7.067 1.233 3.062 34.487 B B 46 72 3.878 B B 68 67 2.957 2.270 -1.360 -2.249 BB_G46U72:A67C68_BB 40 -9.454 16.152 33.128 -4.124 0.915 3.057 27.899 B B 72 73 7.849 B B 67 66 3.053 3.757 -1.247 -0.960 BB_U72U73:A66A67_BB 41 -4.476 9.351 27.292 -2.838 1.578 3.159 33.516 B B 73 74 -0.071 B B 66 65 3.166 -0.041 0.436 -1.717 BB_U73U74:A65A66_BB 42 -0.686 1.190 33.509 -2.972 -0.865 1.809 30.680 B B 74 75 32.368 B B 65 64 3.526 16.282 0.007 -2.299 BB_U74G75:C64A65_BB 43 -0.675 1.342 26.082 -7.182 -0.131 2.860 29.499 B B 75 76 7.992 B B 64 63 3.097 4.056 -0.003 -1.533 BB_G75G76:U63C64_BB 44 -1.196 2.357 29.201 -3.802 -0.227 2.734 41.447 B B 76 77 8.453 B B 63 62 3.070 5.956 0.446 -1.862 BB_G76A77:U62U63_BB 45 -3.807 5.403 40.866 -3.199 -0.993 2.681 30.806 B B 77 78 8.816 B B 62 61 2.976 4.636 0.739 -2.367 BB_A77G78:C61U62_BB 46 6.131 -11.658 29.854 -5.251 -0.340 chem_comp_atom chem_comp_bond database_2 struct_conn struct_site entity pdbx_entity_src_syn repository Initial release Database references Data collection Database references Derived calculations Source and taxonomy Structure summary 1 0 2011-08-17 1 1 2011-10-26 1 2 2024-02-28 1 3 2024-03-13 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_leaving_atom_flag _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _entity.details RCSB Y RCSB 2011-06-23 REL REL GMP GUANOSINE MG MAGNESIUM ION SO4 SULFATE ION SIN SUCCINIC ACID HOH water in vitro transcribed RNA sample GMP 120 2 GMP GMP 120 A MG 228 3 MG MG 228 A SO4 211 4 SO4 SO4 211 A SO4 212 4 SO4 SO4 212 A SO4 213 4 SO4 SO4 213 A SO4 216 4 SO4 SO4 216 A SO4 229 4 SO4 SO4 229 A SIN 301 5 SIN SIN 301 A GMP 120 2 GMP GMP 120 B MG 172 3 MG MG 172 B MG 175 3 MG MG 175 B SO4 214 4 SO4 SO4 214 B SO4 217 4 SO4 SO4 217 B SO4 219 4 SO4 SO4 219 B HOH 69 6 HOH HOH 90 A HOH 87 6 HOH HOH 91 A HOH 83 6 HOH HOH 92 A HOH 171 6 HOH HOH 171 A HOH 180 6 HOH HOH 180 A HOH 64 6 HOH HOH 90 B HOH 174 6 HOH HOH 174 B GTP 22 n 1 GTP 22 A G 23 n 2 G 23 A C 24 n 3 C 24 A C 25 n 4 C 25 A U 26 n 5 U 26 A U 27 n 6 U 27 A A 28 n 7 A 28 A U 29 n 8 U 29 A A 30 n 9 A 30 A C 31 n 10 C 31 A A 32 n 11 A 32 A G 33 n 12 G 33 A G 34 n 13 G 34 A G 35 n 14 G 35 A U 36 n 15 U 36 A A 37 n 16 A 37 A G 38 n 17 G 38 A C 39 n 18 C 39 A A 40 n 19 A 40 A U 41 n 20 U 41 A A 42 n 21 A 42 A A 43 n 22 A 43 A U 44 n 23 U 44 A G 45 n 24 G 45 A G 46 n 25 G 46 A G 47 n 26 G 47 A C 48 n 27 C 48 A U 49 n 28 U 49 A A 50 n 29 A 50 A C 51 n 30 C 51 A U 52 n 31 U 52 A G 53 n 32 G 53 A A 54 n 33 A 54 A C 55 n 34 C 55 A C 56 n 35 C 56 A C 57 n 36 C 57 A C 58 n 37 C 58 A G 59 n 38 G 59 A C 60 n 39 C 60 A C 61 n 40 C 61 A U 62 n 41 U 62 A U 63 n 42 U 63 A C 64 n 43 C 64 A A 65 n 44 A 65 A A 66 n 45 A 66 A A 67 n 46 A 67 A C 68 n 47 C 68 A C 69 n 48 C 69 A U 70 n 49 U 70 A A 71 n 50 A 71 A U 72 n 51 U 72 A U 73 n 52 U 73 A U 74 n 53 U 74 A G 75 n 54 G 75 A G 76 n 55 G 76 A A 77 n 56 A 77 A G 78 n 57 G 78 A A 79 n 58 A 79 A C 80 n 59 C 80 A U 81 n 60 U 81 A A 82 n 61 A 82 A U 83 n 62 U 83 A A 84 n 63 A 84 A A 85 n 64 A 85 A G 86 n 65 G 86 A G 87 n 66 G 87 A U 88 n 67 U 88 A CCC 89 n 68 CCC 89 A GTP 22 n 1 GTP 22 B G 23 n 2 G 23 B C 24 n 3 C 24 B C 25 n 4 C 25 B U 26 n 5 U 26 B U 27 n 6 U 27 B A 28 n 7 A 28 B U 29 n 8 U 29 B A 30 n 9 A 30 B C 31 n 10 C 31 B A 32 n 11 A 32 B G 33 n 12 G 33 B G 34 n 13 G 34 B G 35 n 14 G 35 B U 36 n 15 U 36 B A 37 n 16 A 37 B G 38 n 17 G 38 B C 39 n 18 C 39 B A 40 n 19 A 40 B U 41 n 20 U 41 B A 42 n 21 A 42 B A 43 n 22 A 43 B U 44 n 23 U 44 B G 45 n 24 G 45 B G 46 n 25 G 46 B G 47 n 26 G 47 B C 48 n 27 C 48 B U 49 n 28 U 49 B A 50 n 29 A 50 B C 51 n 30 C 51 B U 52 n 31 U 52 B G 53 n 32 G 53 B A 54 n 33 A 54 B C 55 n 34 C 55 B C 56 n 35 C 56 B C 57 n 36 C 57 B C 58 n 37 C 58 B G 59 n 38 G 59 B C 60 n 39 C 60 B C 61 n 40 C 61 B U 62 n 41 U 62 B U 63 n 42 U 63 B C 64 n 43 C 64 B A 65 n 44 A 65 B A 66 n 45 A 66 B A 67 n 46 A 67 B C 68 n 47 C 68 B C 69 n 48 C 69 B U 70 n 49 U 70 B A 71 n 50 A 71 B U 72 n 51 U 72 B U 73 n 52 U 73 B U 74 n 53 U 74 B G 75 n 54 G 75 B G 76 n 55 G 76 B A 77 n 56 A 77 B G 78 n 57 G 78 B A 79 n 58 A 79 B C 80 n 59 C 80 B U 81 n 60 U 81 B A 82 n 61 A 82 B U 83 n 62 U 83 B A 84 n 63 A 84 B A 85 n 64 A 85 B G 86 n 65 G 86 B G 87 n 66 G 87 B U 88 n 67 U 88 B CCC 89 n 68 CCC 89 B 0.0241 0.0231 -0.0319 0.1230 0.0523 0.0974 0.2219 -0.1179 -0.1122 -0.0546 0.1691 -0.2160 -0.0954 0.0655 0.2387 0.4770 0.0767 0.0244 0.8071 0.0908 0.3427 refined 0.4428 -1.3913 22.4553 X-RAY DIFFRACTION 0.3478 -0.1187 -0.4324 0.0423 0.1401 0.5510 0.0543 0.1165 -0.0948 -0.2975 0.1990 -0.0725 -0.4050 0.0181 0.1428 0.4718 0.0345 0.0784 0.6741 -0.0301 0.3627 refined 1.4940 0.7691 26.6713 X-RAY DIFFRACTION 0.2746 -0.1983 0.1114 0.8900 -0.2949 0.1165 -0.0690 -0.3583 -0.1310 0.3116 0.1144 0.0115 -0.2457 0.0525 0.5835 0.2651 -0.1303 0.0392 0.4763 -0.0962 0.2456 refined 9.1231 1.8765 -3.9012 X-RAY DIFFRACTION 0.0025 -0.0125 -0.0101 0.2258 0.1681 0.1251 0.1434 -0.0286 -0.0018 0.3396 -0.0280 -0.0667 0.1510 -0.2359 0.1316 0.3953 -0.0581 -0.0016 0.6876 -0.0633 0.2334 refined -4.6414 -3.0737 -3.3964 X-RAY DIFFRACTION 0.6503 -0.4128 0.2467 2.0796 0.5598 0.3788 0.1336 -0.0229 0.1209 -0.2582 0.0597 -0.3350 -0.1173 0.1272 0.2153 0.4789 -0.0675 0.0872 0.4892 0.2238 0.4561 refined 1.2815 0.5230 -68.6889 X-RAY DIFFRACTION 0.0179 -0.1051 -0.0651 0.6423 0.4065 0.2592 0.0939 -0.0943 0.1207 0.1888 0.0154 -0.2554 0.1711 -0.0101 0.1950 0.2434 -0.1007 -0.0390 0.4231 0.1872 0.3013 refined 2.3500 -0.8187 -72.7823 X-RAY DIFFRACTION 0.2394 0.2563 0.1664 0.4223 0.1051 0.1571 -0.0960 -0.0375 0.1692 -0.2247 0.2561 0.2113 -0.2220 -0.0804 0.2280 0.1517 0.0581 -0.0214 0.1444 -0.0307 0.1864 refined 9.5970 -3.0693 -41.9137 X-RAY DIFFRACTION 0.0559 -0.0592 -0.0008 0.1162 0.0186 0.0590 -0.0623 -0.2075 -0.0047 0.0008 0.1557 -0.1041 0.0115 -0.0746 0.1412 0.0921 0.1090 0.2113 0.8398 -0.0742 0.0867 refined -4.5634 1.2110 -42.1991 X-RAY DIFFRACTION X-RAY DIFFRACTION 1 (chain A and resid 22:30) X-RAY DIFFRACTION 2 (chain A and resid 81:89) X-RAY DIFFRACTION 3 (chain A and resid 31:47) X-RAY DIFFRACTION 4 (chain A and resid 61:80) X-RAY DIFFRACTION 5 (chain B and resid 22:30) X-RAY DIFFRACTION 6 (chain B and resid 81:89) X-RAY DIFFRACTION 7 (chain B and resid 31:47) X-RAY DIFFRACTION 8 (chain X and resid 61:80) author_defined_assembly 1 monomeric author_defined_assembly 1 monomeric A GTP 22 GUANOSINE-5'-TRIPHOSPHATE A GTP 1 G A CCC 89 A CCC 68 C B GTP 22 GUANOSINE-5'-TRIPHOSPHATE B GTP 1 G B CCC 89 B CCC 68 C 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 1 B PG GTP 22 B PG GTP 1 1 Y 1 B O1G GTP 22 B O1G GTP 1 1 Y 1 B O2G GTP 22 B O2G GTP 1 1 Y 1 B O3G GTP 22 B O3G GTP 1 1 Y 1 A C4 SIN 301 J C4 SIN 1 1 N 1 A O3 SIN 301 J O3 SIN 1 1 N 1 A O4 SIN 301 J O4 SIN 1 1 N 1 -10.51 1.20 119.70 109.19 B B B C3' O3' P GTP GTP G 22 22 23 Y 1 -20.01 1.90 104.00 83.99 B B B O3' P O5' GTP G G 22 23 23 Y 1 15.05 1.10 110.50 125.55 B B B O3' P OP2 GTP G G 22 23 23 Y -8.7938 0.0000 -0.0000 34.9925 -0.0000 -26.1987 0.2751 0.2194 0.2221 2.605 20 520 10910 4.77 89.51 0.46 1 1.89 34.77 0.72 1.00 ML FLAT BULK SOLVENT MODEL 36.610 0.337 2.605 20 7 3003 88 2908 0 0.006 3328 1.000 5175 22.025 1657 0.059 684 0.007 141 0.5270 0.3960 2.8661 138 2394 85.00 0.3054 0.2590 3.2793 113 2327 82.00 0.2371 0.2013 4.1256 134 2626 91.00 0.2133 0.1699 20.0336 135 3043 99.00 2.6 20 3SKZ 12208 11024 0.066 1 39.0 8.4 90.3 0.209 2.6 2.69 7.8 1046 1 8.9 87.2 data collection CBASS phasing MOLREP refinement PHENIX (phenix.refine: 1.7_650) data reduction HKL-2000 data scaling HKL-2000 Crystal structure of the 2'- deoxyguanosine riboswitch bound to guanosine 1 N N 1 N N 2 N N 3 N N 4 N N 4 N N 4 N N 4 N N 4 N N 5 N N 2 N N 3 N N 3 N N 4 N N 4 N N 4 N N 6 N N 6 N N covale 1.590 both A GTP 22 A O3' GTP 1 1_555 A G 23 A P G 2 1_555 covale 1.607 both A U 88 A O3' U 67 1_555 A CCC 89 A P CCC 68 1_555 covale 1.606 both B GTP 22 B O3' GTP 1 1_555 B G 23 B P G 2 1_555 covale 1.589 both B U 88 B O3' U 67 1_555 B CCC 89 B P CCC 68 1_555 hydrog WATSON-CRICK A GTP 22 A N1 GTP 1 1_555 A CCC 89 A N3 CCC 68 1_555 hydrog WATSON-CRICK A GTP 22 A N2 GTP 1 1_555 A CCC 89 A O2 CCC 68 1_555 hydrog WATSON-CRICK A GTP 22 A O6 GTP 1 1_555 A CCC 89 A N4 CCC 68 1_555 hydrog TYPE_28_PAIR A G 23 A N1 G 2 1_555 A U 88 A O2 U 67 1_555 hydrog TYPE_28_PAIR A G 23 A O6 G 2 1_555 A U 88 A N3 U 67 1_555 hydrog WATSON-CRICK A C 24 A N3 C 3 1_555 A G 87 A N1 G 66 1_555 hydrog WATSON-CRICK A C 24 A N4 C 3 1_555 A G 87 A O6 G 66 1_555 hydrog WATSON-CRICK A C 24 A O2 C 3 1_555 A G 87 A N2 G 66 1_555 hydrog WATSON-CRICK A C 25 A N3 C 4 1_555 A G 86 A N1 G 65 1_555 hydrog WATSON-CRICK A C 25 A N4 C 4 1_555 A G 86 A O6 G 65 1_555 hydrog WATSON-CRICK A C 25 A O2 C 4 1_555 A G 86 A N2 G 65 1_555 hydrog WATSON-CRICK A U 26 A N3 U 5 1_555 A A 85 A N1 A 64 1_555 hydrog WATSON-CRICK A U 26 A O4 U 5 1_555 A A 85 A N6 A 64 1_555 hydrog WATSON-CRICK A U 27 A N3 U 6 1_555 A A 84 A N1 A 63 1_555 hydrog WATSON-CRICK A U 27 A O4 U 6 1_555 A A 84 A N6 A 63 1_555 hydrog WATSON-CRICK A A 28 A N1 A 7 1_555 A U 83 A N3 U 62 1_555 hydrog WATSON-CRICK A A 28 A N6 A 7 1_555 A U 83 A O4 U 62 1_555 hydrog WATSON-CRICK A U 29 A N3 U 8 1_555 A A 82 A N1 A 61 1_555 hydrog WATSON-CRICK A U 29 A O4 U 8 1_555 A A 82 A N6 A 61 1_555 hydrog WATSON-CRICK A A 30 A N1 A 9 1_555 A U 81 A N3 U 60 1_555 hydrog WATSON-CRICK A A 30 A N6 A 9 1_555 A U 81 A O4 U 60 1_555 hydrog WATSON-CRICK A C 31 A N3 C 10 1_555 A G 59 A N1 G 38 1_555 hydrog WATSON-CRICK A C 31 A N4 C 10 1_555 A G 59 A O6 G 38 1_555 hydrog WATSON-CRICK A C 31 A O2 C 10 1_555 A G 59 A N2 G 38 1_555 hydrog A-G MISPAIR A A 32 A N1 A 11 1_555 A G 53 A N2 G 32 1_555 hydrog G-G MISPAIR A G 33 A N2 G 12 1_555 A G 34 A O6 G 13 1_555 hydrog G-U MISPAIR A G 33 A N2 G 12 1_555 A U 52 A O4 U 31 1_555 hydrog TYPE_28_PAIR A G 34 A N1 G 13 1_555 A U 52 A O2 U 31 1_555 hydrog TYPE_28_PAIR A G 34 A O6 G 13 1_555 A U 52 A N3 U 31 1_555 hydrog WATSON-CRICK A G 35 A N1 G 14 1_555 A C 51 A N3 C 30 1_555 hydrog WATSON-CRICK A G 35 A N2 G 14 1_555 A C 51 A O2 C 30 1_555 hydrog WATSON-CRICK A G 35 A O6 G 14 1_555 A C 51 A N4 C 30 1_555 hydrog WATSON-CRICK A U 36 A N3 U 15 1_555 A A 50 A N1 A 29 1_555 hydrog WATSON-CRICK A U 36 A O4 U 15 1_555 A A 50 A N6 A 29 1_555 hydrog WATSON-CRICK A A 37 A N1 A 16 1_555 A U 49 A N3 U 28 1_555 hydrog WATSON-CRICK A A 37 A N6 A 16 1_555 A U 49 A O4 U 28 1_555 hydrog WATSON-CRICK A G 38 A N1 G 17 1_555 A C 48 A N3 C 27 1_555 hydrog WATSON-CRICK A G 38 A N2 G 17 1_555 A C 48 A O2 C 27 1_555 hydrog WATSON-CRICK A G 38 A O6 G 17 1_555 A C 48 A N4 C 27 1_555 hydrog WATSON-CRICK A C 39 A N3 C 18 1_555 A G 47 A N1 G 26 1_555 hydrog WATSON-CRICK A C 39 A N4 C 18 1_555 A G 47 A O6 G 26 1_555 hydrog WATSON-CRICK A C 39 A O2 C 18 1_555 A G 47 A N2 G 26 1_555 hydrog A-G MISPAIR A A 42 A N1 A 21 1_555 A G 45 A N2 G 24 1_555 hydrog WATSON-CRICK A G 45 A N1 G 24 1_555 A C 69 A N3 C 48 1_555 hydrog WATSON-CRICK A G 45 A N2 G 24 1_555 A C 69 A O2 C 48 1_555 hydrog WATSON-CRICK A G 45 A O6 G 24 1_555 A C 69 A N4 C 48 1_555 hydrog WATSON-CRICK A G 46 A N1 G 25 1_555 A C 68 A N3 C 47 1_555 hydrog WATSON-CRICK A G 46 A N2 G 25 1_555 A C 68 A O2 C 47 1_555 hydrog WATSON-CRICK A G 46 A O6 G 25 1_555 A C 68 A N4 C 47 1_555 hydrog WATSON-CRICK A G 53 A N1 G 32 1_555 A C 60 A N3 C 39 1_555 hydrog WATSON-CRICK A G 53 A N2 G 32 1_555 A C 60 A O2 C 39 1_555 hydrog WATSON-CRICK A G 53 A O6 G 32 1_555 A C 60 A N4 C 39 1_555 hydrog C-U MISPAIR A C 57 A N4 C 36 1_555 A U 81 A O2 U 60 1_555 hydrog WATSON-CRICK A C 61 A N3 C 40 1_555 A G 78 A N1 G 57 1_555 hydrog WATSON-CRICK A C 61 A N4 C 40 1_555 A G 78 A O6 G 57 1_555 hydrog WATSON-CRICK A C 61 A O2 C 40 1_555 A G 78 A N2 G 57 1_555 hydrog WATSON-CRICK A U 62 A N3 U 41 1_555 A A 77 A N1 A 56 1_555 hydrog WATSON-CRICK A U 62 A O4 U 41 1_555 A A 77 A N6 A 56 1_555 hydrog TYPE_28_PAIR A U 63 A N3 U 42 1_555 A G 76 A O6 G 55 1_555 hydrog TYPE_28_PAIR A U 63 A O2 U 42 1_555 A G 76 A N1 G 55 1_555 hydrog WATSON-CRICK A C 64 A N3 C 43 1_555 A G 75 A N1 G 54 1_555 hydrog WATSON-CRICK A C 64 A N4 C 43 1_555 A G 75 A O6 G 54 1_555 hydrog WATSON-CRICK A C 64 A O2 C 43 1_555 A G 75 A N2 G 54 1_555 hydrog WATSON-CRICK A A 65 A N1 A 44 1_555 A U 74 A N3 U 53 1_555 hydrog WATSON-CRICK A A 65 A N6 A 44 1_555 A U 74 A O4 U 53 1_555 hydrog WATSON-CRICK A A 66 A N1 A 45 1_555 A U 73 A N3 U 52 1_555 hydrog WATSON-CRICK A A 66 A N6 A 45 1_555 A U 73 A O4 U 52 1_555 hydrog WATSON-CRICK A A 67 A N1 A 46 1_555 A U 72 A N3 U 51 1_555 hydrog WATSON-CRICK A A 67 A N6 A 46 1_555 A U 72 A O4 U 51 1_555 hydrog WATSON-CRICK B GTP 22 B N1 GTP 1 1_555 B CCC 89 B N3 CCC 68 1_555 hydrog WATSON-CRICK B GTP 22 B N2 GTP 1 1_555 B CCC 89 B O2 CCC 68 1_555 hydrog WATSON-CRICK B GTP 22 B O6 GTP 1 1_555 B CCC 89 B N4 CCC 68 1_555 hydrog TYPE_28_PAIR B G 23 B N1 G 2 1_555 B U 88 B O2 U 67 1_555 hydrog TYPE_28_PAIR B G 23 B O6 G 2 1_555 B U 88 B N3 U 67 1_555 hydrog WATSON-CRICK B C 24 B N3 C 3 1_555 B G 87 B N1 G 66 1_555 hydrog WATSON-CRICK B C 24 B N4 C 3 1_555 B G 87 B O6 G 66 1_555 hydrog WATSON-CRICK B C 24 B O2 C 3 1_555 B G 87 B N2 G 66 1_555 hydrog WATSON-CRICK B C 25 B N3 C 4 1_555 B G 86 B N1 G 65 1_555 hydrog WATSON-CRICK B C 25 B N4 C 4 1_555 B G 86 B O6 G 65 1_555 hydrog WATSON-CRICK B C 25 B O2 C 4 1_555 B G 86 B N2 G 65 1_555 hydrog U-A PAIR B U 26 B N3 U 5 1_555 B A 85 B N1 A 64 1_555 hydrog WATSON-CRICK B U 27 B N3 U 6 1_555 B A 84 B N1 A 63 1_555 hydrog WATSON-CRICK B U 27 B O4 U 6 1_555 B A 84 B N6 A 63 1_555 hydrog WATSON-CRICK B A 28 B N1 A 7 1_555 B U 83 B N3 U 62 1_555 hydrog WATSON-CRICK B A 28 B N6 A 7 1_555 B U 83 B O4 U 62 1_555 hydrog WATSON-CRICK B U 29 B N3 U 8 1_555 B A 82 B N1 A 61 1_555 hydrog WATSON-CRICK B U 29 B O4 U 8 1_555 B A 82 B N6 A 61 1_555 hydrog WATSON-CRICK B A 30 B N1 A 9 1_555 B U 81 B N3 U 60 1_555 hydrog WATSON-CRICK B A 30 B N6 A 9 1_555 B U 81 B O4 U 60 1_555 hydrog WATSON-CRICK B C 31 B N3 C 10 1_555 B G 59 B N1 G 38 1_555 hydrog WATSON-CRICK B C 31 B N4 C 10 1_555 B G 59 B O6 G 38 1_555 hydrog WATSON-CRICK B C 31 B O2 C 10 1_555 B G 59 B N2 G 38 1_555 hydrog TYPE_10_PAIR B A 32 B N1 A 11 1_555 B G 53 B N2 G 32 1_555 hydrog TYPE_10_PAIR B A 32 B N6 A 11 1_555 B G 53 B N3 G 32 1_555 hydrog G-G MISPAIR B G 33 B N2 G 12 1_555 B G 34 B O6 G 13 1_555 hydrog G-U MISPAIR B G 33 B N2 G 12 1_555 B U 52 B O4 U 31 1_555 hydrog TYPE_28_PAIR B G 34 B N1 G 13 1_555 B U 52 B O2 U 31 1_555 hydrog TYPE_28_PAIR B G 34 B O6 G 13 1_555 B U 52 B N3 U 31 1_555 hydrog WATSON-CRICK B G 35 B N1 G 14 1_555 B C 51 B N3 C 30 1_555 hydrog WATSON-CRICK B G 35 B N2 G 14 1_555 B C 51 B O2 C 30 1_555 hydrog WATSON-CRICK B G 35 B O6 G 14 1_555 B C 51 B N4 C 30 1_555 hydrog WATSON-CRICK B U 36 B N3 U 15 1_555 B A 50 B N1 A 29 1_555 hydrog WATSON-CRICK B U 36 B O4 U 15 1_555 B A 50 B N6 A 29 1_555 hydrog WATSON-CRICK B A 37 B N1 A 16 1_555 B U 49 B N3 U 28 1_555 hydrog WATSON-CRICK B A 37 B N6 A 16 1_555 B U 49 B O4 U 28 1_555 hydrog WATSON-CRICK B G 38 B N1 G 17 1_555 B C 48 B N3 C 27 1_555 hydrog WATSON-CRICK B G 38 B N2 G 17 1_555 B C 48 B O2 C 27 1_555 hydrog WATSON-CRICK B G 38 B O6 G 17 1_555 B C 48 B N4 C 27 1_555 hydrog WATSON-CRICK B C 39 B N3 C 18 1_555 B G 47 B N1 G 26 1_555 hydrog WATSON-CRICK B C 39 B N4 C 18 1_555 B G 47 B O6 G 26 1_555 hydrog WATSON-CRICK B C 39 B O2 C 18 1_555 B G 47 B N2 G 26 1_555 hydrog A-G MISPAIR B A 42 B N1 A 21 1_555 B G 45 B N2 G 24 1_555 hydrog WATSON-CRICK B G 45 B N1 G 24 1_555 B C 69 B N3 C 48 1_555 hydrog WATSON-CRICK B G 45 B N2 G 24 1_555 B C 69 B O2 C 48 1_555 hydrog WATSON-CRICK B G 45 B O6 G 24 1_555 B C 69 B N4 C 48 1_555 hydrog WATSON-CRICK B G 46 B N1 G 25 1_555 B C 68 B N3 C 47 1_555 hydrog WATSON-CRICK B G 46 B N2 G 25 1_555 B C 68 B O2 C 47 1_555 hydrog WATSON-CRICK B G 46 B O6 G 25 1_555 B C 68 B N4 C 47 1_555 hydrog WATSON-CRICK B G 53 B N1 G 32 1_555 B C 60 B N3 C 39 1_555 hydrog WATSON-CRICK B G 53 B N2 G 32 1_555 B C 60 B O2 C 39 1_555 hydrog WATSON-CRICK B G 53 B O6 G 32 1_555 B C 60 B N4 C 39 1_555 hydrog C-U MISPAIR B C 57 B N4 C 36 1_555 B U 81 B O2 U 60 1_555 hydrog WATSON-CRICK B C 61 B N3 C 40 1_555 B G 78 B N1 G 57 1_555 hydrog WATSON-CRICK B C 61 B N4 C 40 1_555 B G 78 B O6 G 57 1_555 hydrog WATSON-CRICK B C 61 B O2 C 40 1_555 B G 78 B N2 G 57 1_555 hydrog WATSON-CRICK B U 62 B N3 U 41 1_555 B A 77 B N1 A 56 1_555 hydrog WATSON-CRICK B U 62 B O4 U 41 1_555 B A 77 B N6 A 56 1_555 hydrog TYPE_28_PAIR B U 63 B N3 U 42 1_555 B G 76 B O6 G 55 1_555 hydrog TYPE_28_PAIR B U 63 B O2 U 42 1_555 B G 76 B N1 G 55 1_555 hydrog WATSON-CRICK B C 64 B N3 C 43 1_555 B G 75 B N1 G 54 1_555 hydrog WATSON-CRICK B C 64 B N4 C 43 1_555 B G 75 B O6 G 54 1_555 hydrog WATSON-CRICK B C 64 B O2 C 43 1_555 B G 75 B N2 G 54 1_555 hydrog WATSON-CRICK B A 65 B N1 A 44 1_555 B U 74 B N3 U 53 1_555 hydrog WATSON-CRICK B A 65 B N6 A 44 1_555 B U 74 B O4 U 53 1_555 hydrog WATSON-CRICK B A 66 B N1 A 45 1_555 B U 73 B N3 U 52 1_555 hydrog WATSON-CRICK B A 66 B N6 A 45 1_555 B U 73 B O4 U 52 1_555 hydrog WATSON-CRICK B A 67 B N1 A 46 1_555 B U 72 B N3 U 51 1_555 hydrog WATSON-CRICK B A 67 B N6 A 46 1_555 B U 72 B O4 U 51 1_555 hydrog C-U MISPAIR B C 68 B O2 C 47 1_555 B U 72 B N3 U 51 1_555 RNA three-way junction, riboswitch, 2'-deoxy guanosine, RNA 3SKZ PDB 1 3SKZ 22 89 3SKZ 22 89 3SKZ A 1 1 68 22 89 3SKZ 22 89 3SKZ B 1 1 68 BINDING SITE FOR RESIDUE GMP A 120 A GMP 120 Software 8 BINDING SITE FOR RESIDUE MG A 228 A MG 228 Software 2 BINDING SITE FOR RESIDUE SO4 A 211 A SO4 211 Software 3 BINDING SITE FOR RESIDUE SO4 A 212 A SO4 212 Software 2 BINDING SITE FOR RESIDUE SO4 A 213 A SO4 213 Software 4 BINDING SITE FOR RESIDUE SO4 A 216 A SO4 216 Software 4 BINDING SITE FOR RESIDUE SO4 A 229 A SO4 229 Software 2 BINDING SITE FOR RESIDUE SIN A 301 A SIN 301 Software 2 BINDING SITE FOR RESIDUE GMP B 120 B GMP 120 Software 9 BINDING SITE FOR RESIDUE MG B 172 B MG 172 Software 4 BINDING SITE FOR RESIDUE SO4 B 214 B SO4 214 Software 2 BINDING SITE FOR RESIDUE SO4 B 217 B SO4 217 Software 2 BINDING SITE FOR RESIDUE SO4 B 219 B SO4 219 Software 3 A A 30 A A 9 8 1_555 A C 31 A C 10 8 1_555 A C 55 A C 34 8 1_555 A C 57 A C 36 8 1_555 A C 58 A C 37 8 1_555 A G 59 A G 38 8 1_555 A C 80 A C 59 8 1_555 A U 81 A U 60 8 1_555 A C 58 A C 37 2 1_555 A G 59 A G 38 2 1_555 A C 24 A C 3 3 1_555 A C 25 A C 4 3 1_555 A G 86 A G 65 3 1_555 A C 64 A C 43 2 1_555 A A 65 A A 44 2 1_555 A A 30 A A 9 4 1_555 A A 79 A A 58 4 1_555 A C 80 A C 59 4 1_555 A U 81 A U 60 4 1_555 A C 39 A C 18 4 1_555 A A 40 A A 19 4 1_555 A U 41 A U 20 4 1_555 A HOH 91 Q HOH 4 1_555 A C 68 A C 47 2 1_555 A HOH 180 Q HOH 2 1_555 A C 57 A C 36 2 1_555 A C 58 A C 37 2 1_555 B A 30 B A 9 9 1_555 B C 31 B C 10 9 1_555 B A 54 B A 33 9 1_555 B C 55 B C 34 9 1_555 B C 57 B C 36 9 1_555 B C 58 B C 37 9 1_555 B G 59 B G 38 9 1_555 B C 80 B C 59 9 1_555 B U 81 B U 60 9 1_555 B A 32 B A 11 4 1_555 B C 61 B C 40 4 1_555 B A 77 B A 56 4 1_555 B G 78 B G 57 4 1_555 B C 24 B C 3 2 1_555 B C 25 B C 4 2 1_555 B C 64 B C 43 2 1_555 B A 65 B A 44 2 1_555 B C 39 B C 18 3 1_555 B A 40 B A 19 3 1_555 B U 41 B U 20 3 1_555 19 P 21 21 21