0.039716 0.000000 0.000000 0.000000 0.022376 0.000000 0.000000 0.000000 0.008313 0.00000 0.00000 0.00000 3.54356 2.42580 25.62398 1.50364 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 16.37977 2.54835 4.54127 84.28225 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 9.41153 2.53737 2.59044 63.03566 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 4.01032 2.96436 19.97189 1.75589 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 4.49882 3.47563 15.80542 1.70748 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 9.51135 5.44231 1.42069 35.72801 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 9.55732 6.39887 1.23737 29.19336 0.0 2-Gaussian fit: Grosse-Kunstleve RW, Sauter NK, Adams PD: Newsletter of the IUCr Commission on Crystallographic Computing 2004, 3, 22-31. 0009-0000-3495-8434 Koomullam, N. 0000-0002-6384-9445 Batchelder-Schwab, E. 0000-0001-7516-8666 Mao, C. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.000 90.000 90.000 25.179 44.690 120.288 135354.013 C10 H14 N5 O6 P 331.222 y 2'-DEOXYADENOSINE-5'-MONOPHOSPHATE DNA 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 C3 H7 N O 73.094 DIMETHYLFORMAMIDE non-polymer C10 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA linking H2 O 18.015 WATER non-polymer C38 H50 N6 O6 S2 2 750.970 4-[(3-{2,16-dioxo-20-[(3aR,4R,6aS)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]-6,9,12-trioxa-3,15-diazaicosan-1-yl}-1,3-benzothiazol-3-ium-2-yl)methyl]-1-methylquinolin-1-ium non-polymer K 1 39.098 POTASSIUM ION non-polymer Mg 2 24.305 MAGNESIUM ION non-polymer 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 N C N 12 R C Y 13 N N Y 14 N C Y 15 N N Y 16 N C Y 17 N C N 18 N N Y 19 N N Y 20 N C Y 21 N N Y 22 N C N 23 N H 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 O N 38 N P N 39 N O N 40 N O N 41 N O N 42 N C N 43 R C N 44 N O N 45 S C N 46 N O N 47 N C N 48 R C N 49 N N N 50 N C N 51 N O N 52 N N N 53 N C N 54 N N N 55 N C N 56 N C N 57 N H N 58 N H 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 O N 72 N P N 73 N O N 74 N O N 75 N O N 76 N C N 77 R C N 78 N O N 79 S C N 80 N O N 81 N C N 82 R C Y 83 N N Y 84 N C Y 85 N N Y 86 N C N 87 N C N 88 N O N 89 N N N 90 N C N 91 N N N 92 N N Y 93 N C 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 H N 108 N C N 109 N C N 110 N C N 111 N O N 112 N N N 113 N H N 114 N H N 115 N H N 116 N H N 117 N H N 118 N H N 119 N H N 120 N O N 121 N P N 122 N O N 123 N O N 124 N O N 125 N C N 126 R C N 127 N O N 128 S C N 129 N O N 130 N C N 131 R C N 132 N N N 133 N C N 134 N O N 135 N N N 136 N C N 137 N O N 138 N C N 139 N C N 140 N C 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 H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N O N 157 N H N 158 N H N 159 N C N 160 N C Y 161 N C Y 162 N C Y 163 N C N 164 N C Y 165 N C N 166 N C N 167 N C N 168 N C N 169 N C N 170 N C N 171 N C N 172 N C N 173 N C N 174 N C N 175 N C N 176 N C N 177 N C N 178 N C N 179 N C N 180 R C N 181 N C N 182 S C N 183 N C N 184 R C Y 185 N C Y 186 N C Y 187 N C Y 188 N C Y 189 N C Y 190 N C Y 191 N C Y 192 N C Y 193 N C Y 194 N C Y 195 N C Y 196 N C Y 197 N N Y 198 N N N 199 N N N 200 N N N 201 N N N 202 N N N 203 N O N 204 N O N 205 N O N 206 N O N 207 N O N 208 N O N 209 N S Y 210 N S 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 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 H N 230 N H N 231 N H N 232 N H N 233 N H N 234 N H N 235 N H 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 H N 253 N H N 254 N H N 255 N H N 256 N H N 257 N H N 258 N H N 259 N H N 260 N H N 261 N K N 262 N MG 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 Y 24 N sing Y 25 N sing Y 26 N doub N 27 N sing Y 28 N sing Y 29 N sing Y 30 N doub N 31 N sing Y 32 N doub N 33 N sing N 34 N sing Y 35 N sing Y 36 N doub N 37 N sing Y 38 N sing N 39 N sing N 40 N sing N 41 N doub N 42 N sing 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 doub N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N doub N 72 N sing N 73 N sing 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 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 Y 97 N sing Y 98 N sing Y 99 N doub N 100 N sing Y 101 N sing N 102 N sing Y 103 N doub N 104 N doub N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N doub N 110 N sing N 111 N sing N 112 N sing N 113 N sing 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 doub N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N doub 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 N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N sing N 144 N sing N 145 N sing N 146 N sing N 147 N sing N 148 N sing N 149 N doub N 150 N sing N 151 N sing N 152 N sing N 153 N doub N 154 N sing N 155 N sing N 156 N doub N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing Y 163 N doub Y 164 N sing Y 165 N sing Y 166 N doub Y 167 N doub Y 168 N sing Y 169 N sing Y 170 N sing N 171 N sing Y 172 N doub N 173 N sing Y 174 N doub N 175 N sing N 176 N sing N 177 N sing Y 178 N sing Y 179 N doub Y 180 N sing N 181 N doub Y 182 N sing N 183 N sing Y 184 N sing Y 185 N doub Y 186 N sing Y 187 N sing Y 188 N doub N 189 N sing Y 190 N doub Y 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 doub 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 doub N 219 N sing N 220 N sing N 221 N sing N 222 N sing N 223 N sing 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 sing N 251 N sing N 252 N sing N 253 N sing N 254 N sing N 255 N sing N 256 N sing N 257 N sing N 258 N sing N 259 N sing N 260 N sing N 261 N sing 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 ACS Sens 2379-3694 11 3587 3600 10.1021/acssensors.5c04046 42112875 Fluorogenic Aptamer Optimization on a Massively Parallel Sequencing Platform. 2026 10.2210/pdb9ehb/pdb pdb_00009ehb 100 1 N PIXEL 2024-08-09 DECTRIS EIGER X 9M SINGLE WAVELENGTH M x-ray 1 0.92 1.0 17-ID-1 NSLS-II 0.92 SYNCHROTRON NSLS-II BEAMLINE 17-ID-1 16557.574 DNA 53-mer 1 syn polymer 39.098 POTASSIUM ION 1 syn non-polymer 24.305 MAGNESIUM ION 3 syn non-polymer 73.094 DIMETHYLFORMAMIDE 1 syn non-polymer 750.970 4-[(3-{2,16-dioxo-20-[(3aR,4R,6aS)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]-6,9,12-trioxa-3,15-diazaicosan-1-yl}-1,3-benzothiazol-3-ium-2-yl)methyl]-1-methylquinolin-1-ium 1 syn non-polymer 18.015 water 38 nat water no no (DC)(DT)(DT)(DA)(DG)(DT)(DA)(DG)(DG)(DG)(DA)(DT)(DG)(DA)(DT)(DG)(DC)(DG)(DG)(DT) (DA)(DG)(DT)(DG)(DG)(DG)(DC)(DT)(DT)(DC)(DG)(DC)(DA)(DG)(DT)(DT)(DC)(DC)(DT)(DG) (DC)(DG)(DA)(DG)(DG)(DG)(DG)(DA)(DC)(DT)(DA)(DA)(DG) CTTAGTAGGGATGATGCGGTAGTGGGCTTCGCAGTTCCTGCGAGGGGACTAAG B polydeoxyribonucleotide 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 2.04 39.81 VAPOR DIFFUSION, HANGING DROP 100 uM annealed DNA (in 20 mM MOPS KOH pH 7.0, 150 mM KCl, 1 mM MgCl2 and 10 uM EDTA) was mixed with equimolar chromophore and mixed with crystallization buffer solution (1 M magnesium chloride hexahydrate, 2 M HEPES pH 7.5 and PEG MME 550) and crystallized against 300 uL crystallization buffer and 300 uL water mixture. 298 5.807 1 19 B -5 B 47 2.202 B_DC-5:DG47_B 1 -7.816 0.529 0.123 -0.153 -4.716 1 20 B -4 B 46 5.143 B_DT-4:DA46_B 2 -13.779 0.015 0.124 -0.224 -6.039 1 20 B -3 B 45 0.349 B_DT-3:DA45_B 3 -12.529 0.005 0.110 -0.220 5.385 1 20 B -2 B 44 5.624 B_DA-2:DT44_B 4 -9.425 -0.311 0.038 -0.154 -4.380 1 19 B -1 B 43 12.206 B_DG-1:DC43_B 5 -17.416 -0.467 -0.006 -0.015 -10.874 1 20 B 0 B 42 1.681 B_DT0:DA42_B 6 -14.862 -0.143 0.191 -0.289 21.064 2 21 B 1 B 17 168.591 B_DA1:DT17_B 7 11.659 0.194 -0.381 1.181 0.534 2 B 2 B 16 -68.112 B_DG2:DG16_B 8 -33.291 -3.717 -0.288 1.313 -16.128 3 6 B 3 B 13 -94.400 B_DG3:DG13_B 9 -10.895 1.425 0.497 3.449 -16.213 1 19 B 20 B 11 0.265 B_DG20:DC11_B 10 0.358 -0.416 0.022 -0.124 10.950 1 19 B 21 B 10 3.316 B_DC21:DG10_B 11 -5.385 0.517 -0.213 -0.205 11.936 1 16 B 22 B 9 13.189 B_DT22:DT9_B 12 -20.119 2.495 0.553 -2.369 -13.943 3 23 B 23 B 8 -63.352 B_DT23:DA8_B 13 -9.273 -0.578 0.387 3.979 -19.208 1 19 B 24 B 36 -9.107 B_DC24:DG36_B 14 -7.288 0.485 0.146 -0.352 -6.758 1 19 B 25 B 35 -5.749 B_DG25:DC35_B 15 -8.573 -0.150 0.130 -0.199 4.492 1 19 B 26 B 34 1.151 B_DC26:DG34_B 16 -5.993 0.696 -0.228 -0.341 6.742 1 20 B 27 B 33 -3.639 B_DA27:DT33_B 17 -18.373 0.416 0.200 -0.547 41.290 B 28 B 31 17.375 B_DG28:DC31_B 18 -19.817 6.707 1.585 -4.373 3.411 35.727 B B -5 -4 0.814 B B 47 46 3.437 0.499 -0.085 -1.167 BB_DC-5DT-4:DA46DG47_BB 1 1.929 -3.145 35.673 -1.978 0.430 3.233 30.111 B B -4 -3 3.310 B B 46 45 3.286 1.719 -0.888 -0.739 BB_DT-4DT-3:DA45DA46_BB 2 0.202 -0.389 30.063 -1.772 1.751 3.128 36.020 B B -3 -2 9.052 B B 45 44 3.074 5.575 0.642 0.409 BB_DT-3DA-2:DT44DA45_BB 3 1.780 -2.891 35.557 -0.094 -0.796 3.257 35.659 B B -2 -1 16.325 B B 44 43 3.438 9.859 -0.036 -0.159 BB_DA-2DG-1:DC43DT44_BB 4 -3.474 5.751 34.141 -1.757 -0.469 3.495 37.260 B B -1 0 0.566 B B 43 42 3.456 0.361 -0.872 -0.893 BB_DG-1DT0:DA42DC43_BB 5 -2.419 3.789 37.183 -1.449 1.023 1.526 164.383 B B 0 1 27.898 B B 42 17 -2.617 53.072 2.240 4.587 BB_DT0DA1:DT17DA42_BB 6 152.178 -79.995 67.723 2.411 -1.406 0.937 179.882 B B 1 2 59.781 B B 17 16 1.071 119.555 2.567 1.719 BB_DA1DG2:DG16DT17_BB 7 -133.559 66.783 161.845 0.807 -1.343 3.138 150.059 B B 2 3 88.268 B B 16 13 -2.882 149.672 -3.223 3.298 BB_DG2DG3:DG13DG16_BB 8 -8.128 4.793 11.936 1.588 1.662 2.496 27.303 B B 20 21 5.371 B B 11 10 2.617 2.529 -0.940 -0.338 BB_DG20DC21:DG10DC11_BB 9 2.117 -4.496 27.107 -1.210 2.406 3.209 44.011 B B 21 22 14.981 B B 10 9 3.270 11.109 1.241 0.492 BB_DC21DT22:DT9DG10_BB 10 -2.844 3.835 42.562 -0.401 -1.926 3.341 66.180 B B 22 23 -1.010 B B 9 8 3.300 -1.101 0.106 -3.297 BB_DT22DT23:DA8DT9_BB 11 7.875 -7.226 65.754 -2.974 0.225 3.950 18.713 B B 23 24 5.358 B B 8 36 3.895 1.712 -0.118 2.422 BB_DT23DC24:DG36DA8_BB 12 -5.739 17.960 17.737 6.325 -3.405 3.241 25.081 B B 24 25 7.734 B B 36 35 3.150 3.343 -0.289 0.802 BB_DC24DG25:DC35DG36_BB 13 -2.569 5.943 24.730 0.875 -0.082 2.972 37.166 B B 25 26 4.242 B B 35 34 2.923 2.699 0.923 -0.039 BB_DG25DC26:DG34DC35_BB 14 2.754 -4.328 36.972 -0.386 -1.116 3.440 32.543 B B 26 27 4.001 B B 34 33 3.361 2.236 -0.489 0.796 BB_DC26DA27:DT33DG34_BB 15 -3.693 6.609 32.263 1.014 0.199 2.732 54.808 B B 27 28 -8.313 B B 33 31 2.925 -7.577 -1.116 2.615 BB_DA27DG28:DC31DT33_BB 16 -12.098 13.274 53.056 3.241 0.573 citation citation_author repository Initial release Database references 1 0 2026-05-27 1 1 2026-06-03 _citation.journal_volume _citation.page_first _citation.page_last _citation_author.identifier_ORCID United States National Science Foundation (NSF, United States) CCF 2107393 mao@purdue.edu 0000-0001-7516-8666 Chengde Mao principal investigator/group leader N RCSB Y RCSB 2024-11-22 REL REL 1 B O HOH 238 7.28 HZD HZD SUBJECT OF INVESTIGATION K POTASSIUM ION MG MAGNESIUM ION DMF DIMETHYLFORMAMIDE HZD 4-[(3-{2,16-dioxo-20-[(3aR,4R,6aS)-2-oxohexahydro-1H-thieno[3,4-d]imidazol-4-yl]-6,9,12-trioxa-3,15-diazaicosan-1-yl}-1,3-benzothiazol-3-ium-2-yl)methyl]-1-methylquinolin-1-ium HOH water 32630 synthetic construct sample 1 53 Y N 8FHX PDB experimental model K 95 2 K K 101 B MG 97 3 MG MG 102 B MG 98 3 MG MG 103 B DMF 99 4 DMF DMF 104 B HZD 1 5 HZD HZD 105 B MG 4 3 MG MG 106 B HOH 13 6 HOH HOH 201 B HOH 32 6 HOH HOH 202 B HOH 27 6 HOH HOH 203 B HOH 3 6 HOH HOH 204 B HOH 28 6 HOH HOH 205 B HOH 4 6 HOH HOH 206 B HOH 33 6 HOH HOH 207 B HOH 11 6 HOH HOH 208 B HOH 16 6 HOH HOH 209 B HOH 9 6 HOH HOH 210 B HOH 38 6 HOH HOH 211 B HOH 7 6 HOH HOH 212 B HOH 30 6 HOH HOH 213 B HOH 12 6 HOH HOH 214 B HOH 20 6 HOH HOH 215 B HOH 31 6 HOH HOH 216 B HOH 14 6 HOH HOH 217 B HOH 39 6 HOH HOH 218 B HOH 22 6 HOH HOH 219 B HOH 24 6 HOH HOH 220 B HOH 29 6 HOH HOH 221 B HOH 6 6 HOH HOH 222 B HOH 15 6 HOH HOH 223 B HOH 5 6 HOH HOH 224 B HOH 19 6 HOH HOH 225 B HOH 40 6 HOH HOH 226 B HOH 8 6 HOH HOH 227 B HOH 18 6 HOH HOH 228 B HOH 26 6 HOH HOH 229 B HOH 34 6 HOH HOH 230 B HOH 35 6 HOH HOH 231 B HOH 36 6 HOH HOH 232 B HOH 17 6 HOH HOH 233 B HOH 25 6 HOH HOH 234 B HOH 21 6 HOH HOH 235 B HOH 37 6 HOH HOH 236 B HOH 10 6 HOH HOH 237 B HOH 23 6 HOH HOH 238 B DC -5 n 1 DC -5 B DT -4 n 2 DT -4 B DT -3 n 3 DT -3 B DA -2 n 4 DA -2 B DG -1 n 5 DG -1 B DT 0 n 6 DT 0 B DA 1 n 7 DA 1 B DG 2 n 8 DG 2 B DG 3 n 9 DG 3 B DG 4 n 10 DG 4 B DA 5 n 11 DA 5 B DT 6 n 12 DT 6 B DG 7 n 13 DG 7 B DA 8 n 14 DA 8 B DT 9 n 15 DT 9 B DG 10 n 16 DG 10 B DC 11 n 17 DC 11 B DG 12 n 18 DG 12 B DG 13 n 19 DG 13 B DT 14 n 20 DT 14 B DA 15 n 21 DA 15 B DG 16 n 22 DG 16 B DT 17 n 23 DT 17 B DG 18 n 24 DG 18 B DG 19 n 25 DG 19 B DG 20 n 26 DG 20 B DC 21 n 27 DC 21 B DT 22 n 28 DT 22 B DT 23 n 29 DT 23 B DC 24 n 30 DC 24 B DG 25 n 31 DG 25 B DC 26 n 32 DC 26 B DA 27 n 33 DA 27 B DG 28 n 34 DG 28 B DT 29 n 35 DT 29 B DT 30 n 36 DT 30 B DC 31 n 37 DC 31 B DC 32 n 38 DC 32 B DT 33 n 39 DT 33 B DG 34 n 40 DG 34 B DC 35 n 41 DC 35 B DG 36 n 42 DG 36 B DA 37 n 43 DA 37 B DG 38 n 44 DG 38 B DG 39 n 45 DG 39 B DG 40 n 46 DG 40 B DG 41 n 47 DG 41 B DA 42 n 48 DA 42 B DC 43 n 49 DC 43 B DT 44 n 50 DT 44 B DA 45 n 51 DA 45 B DA 46 n 52 DA 46 B DG 47 n 53 DG 47 B 2.05735011126 -0.450464422476 1.72979976508 2.91861730027 -1.82403300607 6.19537993979 -0.111545417246 -0.620941336431 -0.181673532495 0.384604829578 0.495213659774 0.0724021751177 -0.0570448488221 -0.566064736454 -0.326710392289 0.318964938948 0.122731944114 0.00984720483247 0.559171845517 0.029104884275 0.285696098589 refined -5.77783297248 3.73440299572 -16.5231675352 X-RAY DIFFRACTION A 1 A D 40 H X-RAY DIFFRACTION 1 all author_and_software_defined_assembly PISA 1 monomeric none B DG 3 A O6 DG 9 1_555 B K 101 B K K 1_555 B DG 4 A O6 DG 10 1_555 74.5 B DG 3 A O6 DG 9 1_555 B K 101 B K K 1_555 B DG 12 A O6 DG 18 1_555 117.8 B DG 4 A O6 DG 10 1_555 B K 101 B K K 1_555 B DG 12 A O6 DG 18 1_555 68.8 B DG 3 A O6 DG 9 1_555 B K 101 B K K 1_555 B DG 13 A O6 DG 19 1_555 70.5 B DG 4 A O6 DG 10 1_555 B K 101 B K K 1_555 B DG 13 A O6 DG 19 1_555 94.7 B DG 12 A O6 DG 18 1_555 B K 101 B K K 1_555 B DG 13 A O6 DG 19 1_555 64.8 B DG 3 A O6 DG 9 1_555 B K 101 B K K 1_555 B DG 18 A O6 DG 24 1_555 110.4 B DG 4 A O6 DG 10 1_555 B K 101 B K K 1_555 B DG 18 A O6 DG 24 1_555 160.7 B DG 12 A O6 DG 18 1_555 B K 101 B K K 1_555 B DG 18 A O6 DG 24 1_555 93.2 B DG 13 A O6 DG 19 1_555 B K 101 B K K 1_555 B DG 18 A O6 DG 24 1_555 70.6 B DG 3 A O6 DG 9 1_555 B K 101 B K K 1_555 B DG 19 A O6 DG 25 1_555 173.6 B DG 4 A O6 DG 10 1_555 B K 101 B K K 1_555 B DG 19 A O6 DG 25 1_555 106.2 B DG 12 A O6 DG 18 1_555 B K 101 B K K 1_555 B DG 19 A O6 DG 25 1_555 67.9 B DG 13 A O6 DG 19 1_555 B K 101 B K K 1_555 B DG 19 A O6 DG 25 1_555 115.6 B DG 18 A O6 DG 24 1_555 B K 101 B K K 1_555 B DG 19 A O6 DG 25 1_555 71.1 B DG 3 A O6 DG 9 1_555 B K 101 B K K 1_555 B DG 39 A O6 DG 45 1_555 105.0 B DG 4 A O6 DG 10 1_555 B K 101 B K K 1_555 B DG 39 A O6 DG 45 1_555 79.6 B DG 12 A O6 DG 18 1_555 B K 101 B K K 1_555 B DG 39 A O6 DG 45 1_555 115.1 B DG 13 A O6 DG 19 1_555 B K 101 B K K 1_555 B DG 39 A O6 DG 45 1_555 173.7 B DG 18 A O6 DG 24 1_555 B K 101 B K K 1_555 B DG 39 A O6 DG 45 1_555 115.5 B DG 19 A O6 DG 25 1_555 B K 101 B K K 1_555 B DG 39 A O6 DG 45 1_555 69.1 B DG 3 A O6 DG 9 1_555 B K 101 B K K 1_555 B DG 40 A O6 DG 46 1_555 72.4 B DG 4 A O6 DG 10 1_555 B K 101 B K K 1_555 B DG 40 A O6 DG 46 1_555 129.3 B DG 12 A O6 DG 18 1_555 B K 101 B K K 1_555 B DG 40 A O6 DG 46 1_555 161.9 B DG 13 A O6 DG 19 1_555 B K 101 B K K 1_555 B DG 40 A O6 DG 46 1_555 108.7 B DG 18 A O6 DG 24 1_555 B K 101 B K K 1_555 B DG 40 A O6 DG 46 1_555 68.8 B DG 19 A O6 DG 25 1_555 B K 101 B K K 1_555 B DG 40 A O6 DG 46 1_555 103.0 B DG 39 A O6 DG 45 1_555 B K 101 B K K 1_555 B DG 40 A O6 DG 46 1_555 73.3 B DT 6 A OP2 DT 12 1_555 B MG 103 D MG MG 1_555 B DG 7 A N7 DG 13 1_555 98.1 B DT 6 A OP2 DT 12 1_555 B MG 103 D MG MG 1_555 B DT 9 A OP2 DT 15 1_555 129.1 B DG 7 A N7 DG 13 1_555 B MG 103 D MG MG 1_555 B DT 9 A OP2 DT 15 1_555 111.3 B DT 6 A OP2 DT 12 1_555 B MG 103 D MG MG 1_555 B HOH 201 H O HOH 1_555 99.4 B DG 7 A N7 DG 13 1_555 B MG 103 D MG MG 1_555 B HOH 201 H O HOH 1_555 107.8 B DT 9 A OP2 DT 15 1_555 B MG 103 D MG MG 1_555 B HOH 201 H O HOH 1_555 109.1 B DT 6 A OP2 DT 12 1_555 B MG 103 D MG MG 1_555 B HOH 208 H O HOH 1_555 64.5 B DG 7 A N7 DG 13 1_555 B MG 103 D MG MG 1_555 B HOH 208 H O HOH 1_555 157.6 B DT 9 A OP2 DT 15 1_555 B MG 103 D MG MG 1_555 B HOH 208 H O HOH 1_555 74.2 B HOH 201 H O HOH 1_555 B MG 103 D MG MG 1_555 B HOH 208 H O HOH 1_555 89.7 B DT 6 A OP2 DT 12 1_555 B MG 103 D MG MG 1_555 B HOH 210 H O HOH 1_555 60.8 B DG 7 A N7 DG 13 1_555 B MG 103 D MG MG 1_555 B HOH 210 H O HOH 1_555 85.7 B DT 9 A OP2 DT 15 1_555 B MG 103 D MG MG 1_555 B HOH 210 H O HOH 1_555 80.5 B HOH 201 H O HOH 1_555 B MG 103 D MG MG 1_555 B HOH 210 H O HOH 1_555 158.1 B HOH 208 H O HOH 1_555 B MG 103 D MG MG 1_555 B HOH 210 H O HOH 1_555 73.7 B DT 14 A OP2 DT 20 1_555 B MG 102 C MG MG 1_555 B HOH 206 H O HOH 1_555 111.4 B DT 14 A OP2 DT 20 1_555 B MG 102 C MG MG 1_555 B HOH 212 H O HOH 1_555 97.9 B HOH 206 H O HOH 1_555 B MG 102 C MG MG 1_555 B HOH 212 H O HOH 1_555 80.9 B DT 14 A OP2 DT 20 1_555 B MG 102 C MG MG 1_555 B HOH 214 H O HOH 1_555 85.6 B HOH 206 H O HOH 1_555 B MG 102 C MG MG 1_555 B HOH 214 H O HOH 1_555 118.3 B HOH 212 H O HOH 1_555 B MG 102 C MG MG 1_555 B HOH 214 H O HOH 1_555 157.8 B DT 14 A OP2 DT 20 1_555 B MG 102 C MG MG 1_555 B HOH 215 H O HOH 1_555 170.0 B HOH 206 H O HOH 1_555 B MG 102 C MG MG 1_555 B HOH 215 H O HOH 1_555 78.1 B HOH 212 H O HOH 1_555 B MG 102 C MG MG 1_555 B HOH 215 H O HOH 1_555 80.2 B HOH 214 H O HOH 1_555 B MG 102 C MG MG 1_555 B HOH 215 H O HOH 1_555 92.5 B DT 14 A OP2 DT 20 1_555 B MG 102 C MG MG 1_555 B HOH 224 H O HOH 1_555 110.2 B HOH 206 H O HOH 1_555 B MG 102 C MG MG 1_555 B HOH 224 H O HOH 1_555 137.8 B HOH 212 H O HOH 1_555 B MG 102 C MG MG 1_555 B HOH 224 H O HOH 1_555 86.8 B HOH 214 H O HOH 1_555 B MG 102 C MG MG 1_555 B HOH 224 H O HOH 1_555 71.5 B HOH 215 H O HOH 1_555 B MG 102 C MG MG 1_555 B HOH 224 H O HOH 1_555 60.0 B HOH 204 H O HOH 1_555 B MG 106 G MG MG 1_555 B HOH 222 H O HOH 1_555 60.9 B HOH 204 H O HOH 1_555 B MG 106 G MG MG 1_555 B HOH 233 H O HOH 1_555 131.3 B HOH 222 H O HOH 1_555 B MG 106 G MG MG 1_555 B HOH 233 H O HOH 1_555 80.6 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 C22 HZD 105 F C22 HZD 1 1 N 1 B C23 HZD 105 F C23 HZD 1 1 N 1 B C25 HZD 105 F C25 HZD 1 1 N 1 B C27 HZD 105 F C27 HZD 1 1 N 1 B C28 HZD 105 F C28 HZD 1 1 N 1 B C29 HZD 105 F C29 HZD 1 1 N 1 B C30 HZD 105 F C30 HZD 1 1 N 1 B C31 HZD 105 F C31 HZD 1 1 N 1 B C33 HZD 105 F C33 HZD 1 1 N 1 B C34 HZD 105 F C34 HZD 1 1 N 1 B C36 HZD 105 F C36 HZD 1 1 N 1 B C39 HZD 105 F C39 HZD 1 1 N 1 B N24 HZD 105 F N24 HZD 1 1 N 1 B N35 HZD 105 F N35 HZD 1 1 N 1 B N38 HZD 105 F N38 HZD 1 1 N 1 B O21 HZD 105 F O21 HZD 1 1 N 1 B O26 HZD 105 F O26 HZD 1 1 N 1 B O37 HZD 105 F O37 HZD 1 1 N 1 B S32 HZD 105 F S32 HZD 1 1 N 1 B B O O HOH HOH 223 230 2.06 1 B B O O HOH HOH 225 230 2.08 1 B B O6 O DG HOH 7 201 2.19 1 -5.04 0.70 108.00 102.96 B B B O4' C1' N1 DT DT DT 0 0 0 N 1 3.99 0.30 108.30 112.29 B B B O4' C1' N1 DC DC DC 11 11 11 N 1 2.72 0.30 108.30 111.02 B B B O4' C1' N9 DG DG DG 19 19 19 N 1 2.58 0.30 108.30 110.88 B B B O4' C1' N9 DG DG DG 36 36 36 N 1 B B O3' C3' DG DG 2 2 -0.049 0.006 1.419 1.370 N 1 B B O3' C3' DA DA 37 37 -0.049 0.006 1.419 1.370 N 1 B B O3' C3' DG DG 38 38 -0.045 0.006 1.419 1.374 N 1 B B O3' C3' DA DA 42 42 -0.049 0.006 1.419 1.370 N 1 B B O O HOH HOH 236 238 2.19 1_555 2_554 60.77 0.2821 0.2327 0.2352 2.03 30.07 414 7819 8233 5.03 88.24 0.4050 1 FREE R-VALUE 1.36 MOLECULAR REPLACEMENT 41.9190 0.9000 1.1000 GeoStd + Monomer Library + CDL v1.2 FLAT BULK SOLVENT MODEL 2.03 30.07 38 1180 42 1100 0 0.0096 1276 1.2099 1963 0.0582 211 0.0091 57 33.8805 536 0.4159 0.3566 2.33 142 2618 90.82 0.3668 0.3396 2.93 143 2637 90.94 0.2372 0.1849 30.07 129 2564 83.30 46.27 2.03 30.07 9EHB 9274 .997 1 5.6 5.9 99.4 2.03 2.06 462 0.350 1 refinement PHENIX 1.20.1_4487 data reduction XDS data scaling Aimless phasing PHASER 19 orthorhombic P 21 21 21 P 2ac 2ab x,y,z x+1/2,-y+1/2,-z -x,y+1/2,-z+1/2 -x+1/2,-y,z+1/2 N Structure of short Lettuce aptamer (C14T variant) bound with TO1-biotin. 1 N N 2 N N 3 N N 3 N N 4 N N 5 N N 3 N N 6 N N metalc 2.558 B DG 3 A O6 DG 9 1_555 B K 101 B K K 1_555 metalc 2.594 B DG 4 A O6 DG 10 1_555 B K 101 B K K 1_555 metalc 2.507 B DT 6 A OP2 DT 12 1_555 B MG 103 D MG MG 1_555 metalc 1.892 B DG 7 A N7 DG 13 1_555 B MG 103 D MG MG 1_555 metalc 1.740 B DT 9 A OP2 DT 15 1_555 B MG 103 D MG MG 1_555 metalc 2.839 B DG 12 A O6 DG 18 1_555 B K 101 B K K 1_555 metalc 2.773 B DG 13 A O6 DG 19 1_555 B K 101 B K K 1_555 metalc 1.944 B DT 14 A OP2 DT 20 1_555 B MG 102 C MG MG 1_555 metalc 2.820 B DG 18 A O6 DG 24 1_555 B K 101 B K K 1_555 metalc 2.866 B DG 19 A O6 DG 25 1_555 B K 101 B K K 1_555 metalc 2.603 B DG 39 A O6 DG 45 1_555 B K 101 B K K 1_555 metalc 2.734 B DG 40 A O6 DG 46 1_555 B K 101 B K K 1_555 metalc 2.124 B MG 102 C MG MG 1_555 B HOH 206 H O HOH 1_555 metalc 2.538 B MG 102 C MG MG 1_555 B HOH 212 H O HOH 1_555 metalc 2.011 B MG 102 C MG MG 1_555 B HOH 214 H O HOH 1_555 metalc 2.574 B MG 102 C MG MG 1_555 B HOH 215 H O HOH 1_555 metalc 1.932 B MG 102 C MG MG 1_555 B HOH 224 H O HOH 1_555 metalc 2.004 B MG 103 D MG MG 1_555 B HOH 201 H O HOH 1_555 metalc 2.319 B MG 103 D MG MG 1_555 B HOH 208 H O HOH 1_555 metalc 2.461 B MG 103 D MG MG 1_555 B HOH 210 H O HOH 1_555 metalc 2.586 B MG 106 G MG MG 1_555 B HOH 204 H O HOH 1_555 metalc 1.767 B MG 106 G MG MG 1_555 B HOH 222 H O HOH 1_555 metalc 2.132 B MG 106 G MG MG 1_555 B HOH 233 H O HOH 1_555 hydrog WATSON-CRICK B DC -5 A N3 DC 1 1_555 B DG 47 A N1 DG 53 1_555 hydrog WATSON-CRICK B DC -5 A N4 DC 1 1_555 B DG 47 A O6 DG 53 1_555 hydrog WATSON-CRICK B DC -5 A O2 DC 1 1_555 B DG 47 A N2 DG 53 1_555 hydrog WATSON-CRICK B DT -4 A N3 DT 2 1_555 B DA 46 A N1 DA 52 1_555 hydrog WATSON-CRICK B DT -4 A O4 DT 2 1_555 B DA 46 A N6 DA 52 1_555 hydrog WATSON-CRICK B DT -3 A N3 DT 3 1_555 B DA 45 A N1 DA 51 1_555 hydrog WATSON-CRICK B DT -3 A O4 DT 3 1_555 B DA 45 A N6 DA 51 1_555 hydrog WATSON-CRICK B DA -2 A N1 DA 4 1_555 B DT 44 A N3 DT 50 1_555 hydrog WATSON-CRICK B DA -2 A N6 DA 4 1_555 B DT 44 A O4 DT 50 1_555 hydrog WATSON-CRICK B DG -1 A N1 DG 5 1_555 B DC 43 A N3 DC 49 1_555 hydrog WATSON-CRICK B DG -1 A N2 DG 5 1_555 B DC 43 A O2 DC 49 1_555 hydrog WATSON-CRICK B DG -1 A O6 DG 5 1_555 B DC 43 A N4 DC 49 1_555 hydrog WATSON-CRICK B DT 0 A N3 DT 6 1_555 B DA 42 A N1 DA 48 1_555 hydrog WATSON-CRICK B DT 0 A O4 DT 6 1_555 B DA 42 A N6 DA 48 1_555 hydrog REVERSED WATSON-CRICK B DA 1 A N1 DA 7 1_555 B DT 17 A N3 DT 23 1_555 hydrog REVERSED WATSON-CRICK B DA 1 A N6 DA 7 1_555 B DT 17 A O2 DT 23 1_555 hydrog TYPE_9_PAIR B DA 1 A N6 DA 7 1_555 B DG 41 A O6 DG 47 1_555 hydrog TYPE_9_PAIR B DA 1 A N7 DA 7 1_555 B DG 41 A N1 DG 47 1_555 hydrog DG-DG MISPAIR B DG 2 A O6 DG 8 1_555 B DG 16 A N1 DG 22 1_555 hydrog DG-DG MISPAIR B DG 2 A N1 DG 8 1_555 B DG 18 A O6 DG 24 1_555 hydrog DG-DG MISPAIR B DG 2 A N2 DG 8 1_555 B DG 40 A O6 DG 46 1_555 hydrog TYPE_6_PAIR B DG 3 A N1 DG 9 1_555 B DG 13 A O6 DG 19 1_555 hydrog TYPE_6_PAIR B DG 3 A N2 DG 9 1_555 B DG 13 A N7 DG 19 1_555 hydrog TYPE_6_PAIR B DG 3 A N7 DG 9 1_555 B DG 40 A N2 DG 46 1_555 hydrog TYPE_6_PAIR B DG 3 A O6 DG 9 1_555 B DG 40 A N1 DG 46 1_555 hydrog TYPE_6_PAIR B DG 4 A N7 DG 10 1_555 B DG 12 A N2 DG 18 1_555 hydrog TYPE_6_PAIR B DG 4 A O6 DG 10 1_555 B DG 12 A N1 DG 18 1_555 hydrog TYPE_6_PAIR B DG 4 A N1 DG 10 1_555 B DG 39 A O6 DG 45 1_555 hydrog TYPE_6_PAIR B DG 4 A N2 DG 10 1_555 B DG 39 A N7 DG 45 1_555 hydrog DT-DC MISPAIR B DT 6 A O4 DT 12 1_555 B DC 11 A N4 DC 17 1_555 hydrog TYPE_7_PAIR B DG 7 A N1 DG 13 1_555 B DG 10 A N7 DG 16 1_555 hydrog TYPE_7_PAIR B DG 7 A N2 DG 13 1_555 B DG 10 A O6 DG 16 1_555 hydrog HOOGSTEEN B DA 8 A N6 DA 14 1_555 B DT 23 A O4 DT 29 1_555 hydrog HOOGSTEEN B DA 8 A N7 DA 14 1_555 B DT 23 A N3 DT 29 1_555 hydrog TYPE_16_PAIR B DT 9 A N3 DT 15 1_555 B DT 22 A O2 DT 28 1_555 hydrog TYPE_16_PAIR B DT 9 A O4 DT 15 1_555 B DT 22 A N3 DT 28 1_555 hydrog WATSON-CRICK B DG 10 A N1 DG 16 1_555 B DC 21 A N3 DC 27 1_555 hydrog WATSON-CRICK B DG 10 A N2 DG 16 1_555 B DC 21 A O2 DC 27 1_555 hydrog WATSON-CRICK B DG 10 A O6 DG 16 1_555 B DC 21 A N4 DC 27 1_555 hydrog WATSON-CRICK B DC 11 A N3 DC 17 1_555 B DG 20 A N1 DG 26 1_555 hydrog WATSON-CRICK B DC 11 A N4 DC 17 1_555 B DG 20 A O6 DG 26 1_555 hydrog WATSON-CRICK B DC 11 A O2 DC 17 1_555 B DG 20 A N2 DG 26 1_555 hydrog TYPE_6_PAIR B DG 12 A N7 DG 18 1_555 B DG 19 A N2 DG 25 1_555 hydrog TYPE_6_PAIR B DG 12 A O6 DG 18 1_555 B DG 19 A N1 DG 25 1_555 hydrog TYPE_10_PAIR B DG 13 A N2 DG 19 1_555 B DA 15 A N1 DA 21 1_555 hydrog TYPE_10_PAIR B DG 13 A N3 DG 19 1_555 B DA 15 A N6 DA 21 1_555 hydrog TYPE_6_PAIR B DG 13 A N1 DG 19 1_555 B DG 18 A O6 DG 24 1_555 hydrog TYPE_6_PAIR B DG 13 A N2 DG 19 1_555 B DG 18 A N7 DG 24 1_555 hydrog DT-DG MISPAIR B DT 14 A O4 DT 20 1_555 B DG 19 A N2 DG 25 1_555 hydrog DG-DG MISPAIR B DG 16 A N2 DG 22 1_555 B DG 18 A N7 DG 24 1_555 hydrog TYPE_6_PAIR B DG 18 A N1 DG 24 1_555 B DG 40 A O6 DG 46 1_555 hydrog TYPE_6_PAIR B DG 18 A N2 DG 24 1_555 B DG 40 A N7 DG 46 1_555 hydrog TYPE_6_PAIR B DG 19 A N7 DG 25 1_555 B DG 39 A N2 DG 45 1_555 hydrog TYPE_6_PAIR B DG 19 A O6 DG 25 1_555 B DG 39 A N1 DG 45 1_555 hydrog TYPE_7_PAIR B DG 20 A N7 DG 26 1_555 B DG 38 A N1 DG 44 1_555 hydrog TYPE_7_PAIR B DG 20 A O6 DG 26 1_555 B DG 38 A N2 DG 44 1_555 hydrog WATSON-CRICK B DC 24 A N3 DC 30 1_555 B DG 36 A N1 DG 42 1_555 hydrog WATSON-CRICK B DC 24 A N4 DC 30 1_555 B DG 36 A O6 DG 42 1_555 hydrog WATSON-CRICK B DC 24 A O2 DC 30 1_555 B DG 36 A N2 DG 42 1_555 hydrog WATSON-CRICK B DG 25 A N1 DG 31 1_555 B DC 35 A N3 DC 41 1_555 hydrog WATSON-CRICK B DG 25 A N2 DG 31 1_555 B DC 35 A O2 DC 41 1_555 hydrog WATSON-CRICK B DG 25 A O6 DG 31 1_555 B DC 35 A N4 DC 41 1_555 hydrog WATSON-CRICK B DC 26 A N3 DC 32 1_555 B DG 34 A N1 DG 40 1_555 hydrog WATSON-CRICK B DC 26 A N4 DC 32 1_555 B DG 34 A O6 DG 40 1_555 hydrog WATSON-CRICK B DC 26 A O2 DC 32 1_555 B DG 34 A N2 DG 40 1_555 hydrog WATSON-CRICK B DA 27 A N1 DA 33 1_555 B DT 33 A N3 DT 39 1_555 hydrog WATSON-CRICK B DA 27 A N6 DA 33 1_555 B DT 33 A O4 DT 39 1_555 hydrog DG-DC PAIR B DG 28 A N3 DG 34 1_555 B DC 31 A N4 DC 37 1_555 DNA Structure of short Lettuce aptamer (C14T variant) bound with TO1-biotin., DNA 9EHB PDB 1 1 9EHB -5 47 9EHB -5 47 9EHB B 1 1 53 19 P 21 21 21 P 2ac 2ab