0.025151 0.000000 0.000000 0.000000 0.020202 0.000000 0.000000 0.000000 0.005369 0.000000 0.000000 0.000000 Warner, K.D. Chen, M.C. Song, W. Strack, R.L. Thorn, A. Jaffrey, S.R. Ferre-D'Amare, A.R. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.000 90.000 90.000 39.760 49.500 186.260 C12 H10 F2 N2 O2 252.217 (5Z)-5-(3,5-difluoro-4-hydroxybenzylidene)-2,3-dimethyl-3,5-dihydro-4H-imidazol-4-one non-polymer C10 H14 N5 O7 P 347.221 y ADENOSINE-5'-MONOPHOSPHATE RNA linking Ba 2 137.327 BARIUM ION non-polymer 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 C6 H12 O6 180.156 beta-D-fructofuranose beta-D-fructose; D-fructose; fructose D-saccharide, beta linking C10 H14 N5 O8 P 363.221 y GUANOSINE-5'-MONOPHOSPHATE RNA linking C6 H12 O6 180.156 alpha-D-glucopyranose alpha-D-glucose; D-glucose; glucose D-saccharide, alpha linking H2 O 18.015 WATER non-polymer K 1 39.098 POTASSIUM ION non-polymer C9 H13 N2 O9 P 324.181 y URIDINE-5'-MONOPHOSPHATE RNA linking N 1 N F Y 2 N C Y 3 N C N 4 N O Y 5 N C Y 6 N C Y 7 N C Y 8 N C N 9 N F N 10 N C N 11 N C N 12 N C N 13 N O N 14 N N N 15 N C N 16 N C N 17 N N N 18 N C N 19 N H N 20 N H N 21 N H N 22 N H 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 O N 30 N P N 31 N O N 32 N O N 33 N O N 34 N C N 35 R C N 36 N O N 37 S C N 38 N O N 39 R C N 40 N O N 41 R C Y 42 N N Y 43 N C Y 44 N N Y 45 N C Y 46 N C N 47 N N Y 48 N N Y 49 N C Y 50 N N Y 51 N C N 52 N H N 53 N H N 54 N H N 55 N H N 56 N H 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 BA N 67 N O N 68 N P N 69 N O N 70 N O N 71 N O N 72 N C N 73 R C N 74 N O N 75 S C N 76 N O N 77 R C N 78 N O N 79 R C N 80 N N N 81 N C N 82 N O N 83 N N N 84 N C N 85 N N N 86 N C N 87 N C N 88 N H N 89 N H N 90 N H N 91 N H N 92 N H 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 S P N 103 N O N 104 N O N 105 N P N 106 N O N 107 N O N 108 N O N 109 N O N 110 N C N 111 R C N 112 N O N 113 R C N 114 N O N 115 R C N 116 N O N 117 R C N 118 N N N 119 N C N 120 N O N 121 N N N 122 N C N 123 N N N 124 N C N 125 N C N 126 N H N 127 N H N 128 N H N 129 N H 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 C N 140 R C N 141 S C N 142 S C N 143 R C N 144 N C N 145 N O N 146 N O N 147 N O N 148 N O N 149 N O N 150 N O N 151 N H N 152 N H N 153 N H N 154 N H N 155 N H N 156 N H N 157 N H N 158 N H N 159 N H N 160 N H N 161 N H N 162 N H N 163 N O N 164 N P N 165 N O N 166 N O N 167 N O N 168 N C N 169 R C N 170 N O N 171 S C N 172 N O N 173 R C N 174 N O N 175 R C Y 176 N N Y 177 N C Y 178 N N Y 179 N C N 180 N C N 181 N O N 182 N N N 183 N C N 184 N N N 185 N N Y 186 N C N 187 N H N 188 N H N 189 N H N 190 N H N 191 N H N 192 N H N 193 N H N 194 N H N 195 N H N 196 N H N 197 N H N 198 N H N 199 N H N 200 N H N 201 S C N 202 R C N 203 S C N 204 S C N 205 R C N 206 N C N 207 N O N 208 N O N 209 N O N 210 N O N 211 N O N 212 N O 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 O N 226 N H N 227 N H N 228 N K N 229 N O N 230 N P N 231 N O N 232 N O N 233 N O N 234 N C N 235 R C N 236 N O N 237 S C N 238 N O N 239 R C N 240 N O N 241 R C N 242 N N N 243 N C N 244 N O N 245 N N N 246 N C N 247 N O N 248 N C N 249 N C 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 H N 262 N H N 1 N doub N 2 N sing Y 3 N doub Y 4 N sing N 5 N sing N 6 Z doub N 7 N sing N 8 N sing Y 9 N sing Y 10 N doub N 11 N sing N 12 N sing N 13 N sing N 14 N sing Y 15 N doub Y 16 N sing N 17 N doub 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 N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N doub N 33 N sing N 34 N sing N 35 N sing N 36 N sing N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing 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 Y 54 N sing Y 55 N sing Y 56 N doub N 57 N sing Y 58 N sing Y 59 N sing Y 60 N doub N 61 N sing Y 62 N doub N 63 N sing N 64 N sing Y 65 N sing Y 66 N doub N 67 N sing Y 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 sing 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 doub N 96 N sing N 97 N doub N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N doub N 103 N sing N 104 N sing N 105 N doub N 106 N sing N 107 N sing N 108 N sing N 109 N sing N 110 N doub 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 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 doub N 135 N sing N 136 N doub N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N doub 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 sing N 150 N sing N 151 N sing 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 doub N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N sing N 179 N sing N 180 N sing N 181 N sing N 182 N sing 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 sing N 190 N sing N 191 N sing Y 192 N sing Y 193 N sing Y 194 N doub N 195 N sing Y 196 N sing N 197 N sing Y 198 N doub N 199 N doub 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 sing 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 doub 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 doub N 261 N sing N 262 N sing N 263 N sing N 264 N doub N 265 N sing N 266 N doub N 267 N sing N 268 N sing US Nat.Struct.Mol.Biol. 1545-9985 21 658 663 10.1038/nsmb.2865 25026079 Structural basis for activity of highly efficient RNA mimics of green fluorescent protein. 2014 10.2210/pdb4ts0/pdb pdb_00004ts0 100 1 CCD 2013-08-16 ADSC QUANTUM 315r SINGLE WAVELENGTH M x-ray 1 1.5498 1.0 5.0.2 ALS 1.5498 SYNCHROTRON ALS BEAMLINE 5.0.2 14394.598 Spinach RNA aptamer, bimolecular construct 1 syn polymer 15220.934 Spinach RNA aptamer, bimolecular construct 1 syn polymer 342.297 beta-D-fructofuranose-(2-1)-alpha-D-glucopyranose 4 man branched 39.098 POTASSIUM ION 10 syn non-polymer 137.327 BARIUM ION 1 syn non-polymer 252.217 (5Z)-5-(3,5-difluoro-4-hydroxybenzylidene)-2,3-dimethyl-3,5-dihydro-4H-imidazol-4-one 1 syn non-polymer 18.015 water 15 nat water sucrose no yes GACGCGACCGAAUGAAAUGGUGAAGGACGGGUCCAGCCGGCUG(CCC) GACGCGACCGAAUGAAAUGGUGAAGGACGGGUCCAGCCGGCUGC X polyribonucleotide no yes GCAGCCGGCUUGUUGAGUAGAGUGUGAGCUCCGUAACUGGUCGCGU(CCC) GCAGCCGGCUUGUUGAGUAGAGUGUGAGCUCCGUAACUGGUCGCGUC Y 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 n n n n n n n n n n n n n n n n n n n n n n n 1 3.09 60.19 VAPOR DIFFUSION, HANGING DROP 20% PEG 3350, 0.25M NaCl, 0.1M succinate-K pH 7.0, 15% sucrose 298 -1.000 1 19 X 1 Y 101 -6.943 X_G1:CCC101_Y 1 -4.936 -0.016 0.386 -0.191 0.446 1 20 X 2 Y 94 4.956 X_A2:U94_Y 2 -13.584 -0.047 0.249 0.295 4.037 1 19 X 3 Y 93 -3.284 X_C3:G93_Y 3 -14.655 -0.083 0.255 -0.030 -3.543 1 19 X 4 Y 92 -0.977 X_G4:C92_Y 4 -14.346 0.029 0.259 -0.154 1.380 1 19 X 5 Y 91 2.974 X_C5:G91_Y 5 -12.530 -0.041 0.279 -0.085 1.361 1 19 X 6 Y 90 -0.673 X_G6:C90_Y 6 -7.447 -0.119 0.337 -0.129 5.385 1 20 X 7 Y 89 -0.277 X_A7:U89_Y 7 -7.819 -0.367 0.157 -0.297 4.534 1 19 X 8 Y 88 -4.065 X_C8:G88_Y 8 -9.176 0.555 0.053 -0.350 -3.027 1 19 X 9 Y 87 -4.924 X_C9:G87_Y 9 -0.891 0.257 0.064 -0.377 -10.759 1 20 X 12 Y 86 -3.041 X_A12:U86_Y 10 -2.115 0.140 -0.016 -0.229 -18.094 1 19 X 14 Y 85 0.156 X_G14:C85_Y 11 -13.016 -0.098 -0.356 -0.091 1.423 1 20 X 17 Y 82 13.583 X_A17:U82_Y 12 -17.739 -0.120 -0.455 -0.041 3.621 5 X 18 Y 81 40.577 X_U18:G81_Y 13 -4.144 3.058 -0.590 0.812 5.363 1 19 X 19 Y 80 7.434 X_G19:C80_Y 14 -2.557 0.360 0.404 0.053 -0.486 1 19 X 20 Y 79 1.800 X_G20:C79_Y 15 -18.721 -0.332 0.149 -0.225 -0.974 1 16 X 21 Y 78 5.755 X_U21:U78_Y 16 -21.937 -2.264 0.681 -1.980 -20.936 1 19 X 22 Y 77 0.519 X_G22:C77_Y 17 -18.660 -0.532 -0.181 -0.067 -16.689 1 8 X 23 Y 76 -17.000 X_A23:G76_Y 18 0.615 -0.295 -0.093 1.567 -7.662 X 24 Y 75 -44.110 X_A24:A75_Y 19 2.681 3.792 -0.474 1.686 -13.066 Y 66 Y 73 -135.449 Y_U66:U73_Y 20 16.447 -1.302 0.914 -4.467 25.859 3 6 Y 68 Y 72 86.320 Y_G68:G72_Y 21 -3.779 -1.600 -1.018 -3.638 3.603 3 6 X 30 Y 70 -84.165 X_G30:G70_Y 22 -3.887 1.937 0.050 3.490 -4.495 1 20 X 32 Y 64 -5.236 X_U32:A64_Y 23 6.473 -0.291 0.158 -0.073 9.526 1 19 X 33 Y 63 7.182 X_C33:G63_Y 24 -12.551 -0.059 -0.083 -0.089 3.925 1 19 X 34 Y 60 -1.094 X_C34:G60_Y 25 -10.956 0.150 -0.038 -0.185 4.905 1 20 X 35 Y 59 8.320 X_A35:U59_Y 26 -13.448 0.161 0.120 0.001 2.589 1 19 X 36 Y 57 -4.432 X_G36:C57_Y 27 -13.588 -0.828 0.352 -0.548 5.815 1 19 X 37 Y 56 -3.722 X_C37:G56_Y 28 -15.395 -0.170 0.081 -0.106 4.348 1 19 X 38 Y 55 -2.101 X_C38:G55_Y 29 -7.718 -0.218 0.011 -0.109 -3.270 1 19 X 39 Y 54 -0.401 X_G39:C54_Y 30 -16.713 -0.399 0.026 -0.082 -7.410 1 19 X 40 Y 53 -0.260 X_G40:C53_Y 31 -15.659 -0.039 -0.242 -0.029 -3.442 1 19 X 41 Y 52 -3.078 X_C41:G52_Y 32 -11.623 0.544 0.441 -0.135 0.533 1 20 X 42 Y 51 0.264 X_U42:A51_Y 33 -20.278 0.166 0.398 -0.037 -11.644 1 19 X 43 Y 50 -4.173 X_G43:C50_Y 34 -14.990 0.783 0.260 -0.486 -0.480 1 19 X 44 Y 49 -3.553 X_CCC44:G49_Y 35 -6.919 -0.475 0.458 -0.018 2.975 30.026 X X 1 2 9.182 Y Y 101 94 3.240 4.738 0.009 -1.464 XX_G1A2:U94CCC101_YY 1 -0.416 0.806 29.655 -3.756 -0.099 2.904 35.849 X X 2 3 8.883 Y Y 94 93 3.120 5.448 0.515 -1.309 XX_A2C3:G93U94_YY 2 0.822 -1.340 35.437 -2.850 -0.728 2.299 36.344 X X 3 4 21.356 Y Y 93 92 3.139 13.039 0.138 -1.857 XX_C3G4:C92G93_YY 3 1.468 -2.404 33.968 -4.545 -0.045 2.769 29.983 X X 4 5 8.088 Y Y 92 91 3.046 4.171 0.462 -1.860 XX_G4C5:G91C92_YY 4 0.328 -0.636 29.696 -4.364 -0.833 2.504 29.730 X X 5 6 13.675 Y Y 91 90 3.031 6.950 -0.207 -1.985 XX_C5G6:C90G91_YY 5 -1.857 3.654 28.865 -5.120 0.068 2.663 31.352 X X 6 7 12.260 Y Y 90 89 3.039 6.574 -0.263 -1.574 XX_G6A7:U89C90_YY 6 -1.923 3.586 30.613 -4.005 0.167 3.175 39.368 X X 7 8 3.581 Y Y 89 88 3.275 2.411 0.167 -1.558 XX_A7C8:G88U89_YY 7 -0.698 1.037 39.291 -2.595 -0.329 2.710 35.286 X X 8 9 15.624 Y Y 88 87 3.361 9.361 -0.298 -2.027 XX_C8C9:G87G88_YY 8 1.600 -2.670 34.023 -4.657 0.715 2.736 37.415 X X 9 12 11.891 Y Y 87 86 3.293 7.577 -1.523 -2.228 XX_C9A12:U86G87_YY 9 1.415 -2.220 36.640 -4.401 2.547 3.221 52.254 X X 12 14 3.273 Y Y 86 85 3.267 2.881 -2.549 -1.483 XX_A12G14:C85U86_YY 10 -0.784 0.890 52.174 -1.873 2.843 2.863 87.539 X X 14 17 5.823 Y Y 85 82 3.306 8.029 3.518 0.255 XX_G14A17:U82C85_YY 11 -13.287 9.636 86.427 0.020 -2.815 3.404 40.216 X X 17 18 -1.874 Y Y 82 81 3.410 -1.288 1.118 -1.489 XX_A17U18:G81U82_YY 12 -1.754 2.551 40.160 -2.013 -1.833 4.952 9.018 X X 18 19 -15.444 Y Y 81 80 3.712 -2.330 -2.414 -2.799 XX_U18G19:C80G81_YY 13 -3.614 23.957 7.929 -10.236 3.620 2.598 29.531 X X 19 20 16.910 Y Y 80 79 3.232 8.462 0.465 -1.901 XX_G19G20:C79C80_YY 14 5.007 -10.005 27.881 -5.381 0.066 2.435 29.610 X X 20 21 12.120 Y Y 79 78 2.981 6.055 -0.077 -1.840 XX_G20U21:U78C79_YY 15 -9.019 18.052 27.586 -4.701 -1.487 3.100 43.889 X X 21 22 17.577 Y Y 78 77 3.730 12.951 -0.317 -1.604 XX_U21G22:C77U78_YY 16 2.873 -3.900 41.931 -3.462 0.715 2.394 33.394 X X 22 23 16.159 Y Y 77 76 2.978 9.172 -0.935 -1.739 XX_G22A23:G76C77_YY 17 0.375 -0.660 32.142 -4.301 1.679 2.839 42.234 X X 23 24 3.141 Y Y 76 75 3.215 2.253 -1.518 -1.738 XX_A23A24:A75G76_YY 18 7.046 -9.825 41.610 -2.628 2.781 -4.003 177.109 X Y 24 66 -69.472 Y Y 75 73 -5.087 -138.079 2.587 -1.651 XY_A24U66:U73A75_YY 19 -108.568 54.624 96.691 -2.184 -0.226 -1.893 174.132 Y Y 66 68 -68.640 Y Y 73 72 0.975 -134.581 -4.985 -0.578 YY_U66G68:G72U73_YY 20 109.201 -55.696 57.352 -0.501 2.324 6.748 34.125 X X 30 32 -2.234 Y Y 70 64 6.317 -1.296 2.225 -2.085 XX_G30U32:A64G70_YY 21 8.924 -15.379 32.946 -3.135 -0.913 2.248 30.922 X X 32 33 16.025 Y Y 64 63 2.811 8.437 1.355 -1.954 XX_U32C33:G63A64_YY 22 1.491 -2.832 29.739 -4.954 -2.313 3.032 47.809 X X 33 34 8.943 Y Y 63 60 3.274 7.223 1.400 -1.597 XX_C33C34:G60G63_YY 23 0.663 -0.821 47.288 -2.528 -1.676 2.817 34.811 X X 34 35 11.012 Y Y 60 59 3.234 6.545 0.873 -1.585 XX_C34A35:U59G60_YY 24 -2.673 4.497 34.108 -3.581 -1.840 2.673 40.262 X X 35 36 12.066 Y Y 59 57 3.119 8.247 0.803 -1.700 XX_A35G36:C57U59_YY 25 -2.370 3.468 39.374 -3.306 -1.406 3.086 35.382 X X 36 37 4.341 Y Y 57 56 3.178 2.636 0.376 -1.252 XX_G36C37:G56C57_YY 26 0.683 -1.125 35.281 -2.432 -0.521 2.854 32.763 X X 37 38 9.428 Y Y 56 55 3.223 5.295 0.025 -2.081 XX_C37C38:G55G56_YY 27 1.080 -1.923 32.326 -4.542 0.129 2.284 27.992 X X 38 39 21.199 Y Y 55 54 3.349 10.031 0.693 -2.494 XX_C38G39:C54G55_YY 28 1.273 -2.691 26.136 -7.276 -1.163 2.684 36.934 X X 39 40 17.337 Y Y 54 53 3.251 10.830 -0.119 -1.503 XX_G39G40:C53C54_YY 29 1.384 -2.215 35.337 -3.730 0.362 2.697 35.902 X X 40 41 16.128 Y Y 53 52 3.131 9.797 -0.884 -1.539 XX_G40C41:G52C53_YY 30 -4.610 7.589 34.281 -3.777 0.832 2.889 34.436 X X 41 42 6.877 Y Y 52 51 3.020 4.060 0.469 -1.180 XX_C41U42:A51G52_YY 31 2.223 -3.766 34.133 -2.566 -0.478 1.579 36.089 X X 42 43 31.365 Y Y 51 50 3.098 18.555 -0.016 -2.197 XX_U42G43:C50A51_YY 32 -0.564 0.953 31.086 -5.576 -0.035 2.759 22.347 X X 43 44 10.228 Y Y 50 49 3.081 3.942 0.718 -1.358 XX_G43CCC44:G49C50_YY 33 -1.085 2.814 21.974 -4.828 -2.217 entity pdbx_database_status pdbx_entity_src_syn pdbx_struct_oper_list software atom_site atom_site_anisotrop chem_comp entity entity_name_com pdbx_branch_scheme pdbx_chem_comp_identifier pdbx_entity_branch pdbx_entity_branch_descriptor pdbx_entity_branch_link pdbx_entity_branch_list pdbx_entity_nonpoly pdbx_molecule_features pdbx_nonpoly_scheme pdbx_struct_conn_angle pdbx_validate_close_contact refine_hist struct_asym struct_conn struct_conn_type struct_site struct_site_gen atom_site atom_site_anisotrop chem_comp database_2 entity ndb_struct_na_base_pair ndb_struct_na_base_pair_step pdbx_entity_nonpoly pdbx_nonpoly_scheme pdbx_poly_seq_scheme pdbx_struct_assembly_gen pdbx_struct_conn_angle pdbx_unobs_or_zero_occ_residues struct_asym struct_conn struct_ref_seq chem_comp_atom chem_comp_bond repository Initial release Carbohydrate remediation repository Remediation Database references Database references Derived calculations Other Refinement description Source and taxonomy Structure summary Advisory Atomic model Data collection Derived calculations Non-polymer description Refinement description Structure summary Advisory Atomic model Data collection Database references Derived calculations Structure summary Data collection 1 0 2014-07-23 1 1 2014-08-06 1 2 2014-10-01 1 3 2017-11-22 2 0 2020-07-29 3 0 2022-04-20 3 1 2023-12-27 _entity.pdbx_description _pdbx_database_status.pdb_format_compatible _pdbx_entity_src_syn.pdbx_alt_source_flag _pdbx_struct_oper_list.symmetry_operation _software.classification _atom_site.B_iso_or_equiv _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.label_asym_id _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_entity_id _atom_site.pdbx_formal_charge _atom_site.type_symbol _atom_site_anisotrop.id _atom_site_anisotrop.pdbx_label_asym_id _chem_comp.formula _chem_comp.formula_weight _chem_comp.id _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.type _entity.formula_weight _entity.pdbx_description _entity.src_method _entity.type _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.value _pdbx_validate_close_contact.auth_asym_id_2 _pdbx_validate_close_contact.auth_comp_id_2 _pdbx_validate_close_contact.auth_seq_id_2 _refine_hist.pdbx_number_atoms_nucleic_acid _refine_hist.pdbx_number_atoms_protein _struct_asym.entity_id _struct_conn_type.id _atom_site.B_iso_or_equiv _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.auth_asym_id _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.label_asym_id _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_entity_id _atom_site.label_seq_id _atom_site.pdbx_formal_charge _atom_site.type_symbol _atom_site_anisotrop.U[1][1] _atom_site_anisotrop.U[1][2] _atom_site_anisotrop.U[1][3] _atom_site_anisotrop.U[2][2] _atom_site_anisotrop.U[2][3] _atom_site_anisotrop.U[3][3] _atom_site_anisotrop.id _atom_site_anisotrop.pdbx_auth_asym_id _atom_site_anisotrop.pdbx_auth_atom_id _atom_site_anisotrop.pdbx_auth_comp_id _atom_site_anisotrop.pdbx_auth_seq_id _atom_site_anisotrop.pdbx_label_asym_id _atom_site_anisotrop.pdbx_label_atom_id _atom_site_anisotrop.pdbx_label_comp_id _atom_site_anisotrop.pdbx_label_seq_id _atom_site_anisotrop.type_symbol _chem_comp.pdbx_synonyms _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.value _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_auth_seq_align_end A SUC 303 n A GLC 1 A SUC 303 n A FRU 2 A SUC 302 n B GLC 1 A SUC 302 n B FRU 2 A SUC 301 n C GLC 1 A SUC 301 n C FRU 2 A SUC 304 n D GLC 1 A SUC 304 n D FRU 2 DFrufb b-D-fructofuranose b-D-Fruf Fru DGlcpa a-D-glucopyranose a-D-Glcp Glc N RCSB Y RCSB 2014-06-18 REL REL oligosaccharide DFrufb2-1DGlcpa 3 GMML 1.0 Glycam Condensed Sequence WURCS=2.0/2,2,1/[ha122h-2b_2-5][a2122h-1a_1-5]/1-2/a2-b1 3 PDB2Glycan 1.1.0 WURCS [][b-D-Fruf]{[(2+1)][a-D-Glcp]{}} 3 PDB-CARE LINUCS C1 O2 GLC FRU 1 2 3 O1 HO2 sing n n K POTASSIUM ION BA BARIUM ION 38E (5Z)-5-(3,5-difluoro-4-hydroxybenzylidene)-2,3-dimethyl-3,5-dihydro-4H-imidazol-4-one HOH water 32630 synthetic construct sample 1 44 32630 synthetic construct sample 1 47 Nutrient oligosaccharide with reducing-end-to-reducing-end glycosidic bond sucrose Oligosaccharide K 208 4 K K 101 X K 253 4 K K 102 X K 252 4 K K 103 X K 251 4 K K 104 X K 1 4 K K 105 X BA 201 5 BA BA 106 X K 202 4 K K 201 Y K 255 4 K K 202 Y K 203 4 K K 203 Y K 204 4 K K 204 Y K 254 4 K K 205 Y XDF 1 6 38E 38E 206 Y HOH 13 7 HOH HOH 201 X HOH 16 7 HOH HOH 202 X HOH 2 7 HOH HOH 203 X HOH 5 7 HOH HOH 204 X HOH 8 7 HOH HOH 205 X HOH 14 7 HOH HOH 206 X HOH 10 7 HOH HOH 207 X HOH 11 7 HOH HOH 301 Y HOH 9 7 HOH HOH 302 Y HOH 4 7 HOH HOH 303 Y HOH 15 7 HOH HOH 304 Y HOH 6 7 HOH HOH 305 Y HOH 7 7 HOH HOH 306 Y HOH 3 7 HOH HOH 307 Y HOH 12 7 HOH HOH 308 Y G 1 n 1 G 1 X A 2 n 2 A 2 X C 3 n 3 C 3 X G 4 n 4 G 4 X C 5 n 5 C 5 X G 6 n 6 G 6 X A 7 n 7 A 7 X C 8 n 8 C 8 X C 9 n 9 C 9 X G 10 n 10 G 10 X A 11 n 11 A 11 X A 12 n 12 A 12 X U 13 n 13 U 13 X G 14 n 14 G 14 X A 15 n 15 A 15 X A 16 n 16 A 16 X A 17 n 17 A 17 X U 18 n 18 U 18 X G 19 n 19 G 19 X G 20 n 20 G 20 X U 21 n 21 U 21 X G 22 n 22 G 22 X A 23 n 23 A 23 X A 24 n 24 A 24 X G 25 n 25 G 25 X G 26 n 26 G 26 X A 27 n 27 A 27 X C 28 n 28 C 28 X G 29 n 29 G 29 X G 30 n 30 G 30 X G 31 n 31 G 31 X U 32 n 32 U 32 X C 33 n 33 C 33 X C 34 n 34 C 34 X A 35 n 35 A 35 X G 36 n 36 G 36 X C 37 n 37 C 37 X C 38 n 38 C 38 X G 39 n 39 G 39 X G 40 n 40 G 40 X C 41 n 41 C 41 X U 42 n 42 U 42 X G 43 n 43 G 43 X CCC 44 n 44 CCC 44 X G 49 n 1 G 49 Y C 50 n 2 C 50 Y A 51 n 3 A 51 Y G 52 n 4 G 52 Y C 53 n 5 C 53 Y C 54 n 6 C 54 Y G 55 n 7 G 55 Y G 56 n 8 G 56 Y C 57 n 9 C 57 Y U 58 n 10 U 58 Y U 59 n 11 U 59 Y G 60 n 12 G 60 Y U 61 n 13 U 61 Y U 62 n 14 U 62 Y G 63 n 15 G 63 Y A 64 n 16 A 64 Y G 65 n 17 G 65 Y U 66 n 18 U 66 Y A 67 n 19 A 67 Y G 68 n 20 G 68 Y A 69 n 21 A 69 Y G 70 n 22 G 70 Y U 71 n 23 U 71 Y G 72 n 24 G 72 Y U 73 n 25 U 73 Y G 74 n 26 G 74 Y A 75 n 27 A 75 Y G 76 n 28 G 76 Y C 77 n 29 C 77 Y U 78 n 30 U 78 Y C 79 n 31 C 79 Y C 80 n 32 C 80 Y G 81 n 33 G 81 Y U 82 n 34 U 82 Y A 83 n 35 A 83 Y A 84 n 36 A 84 Y C 85 n 37 C 85 Y U 86 n 38 U 86 Y G 87 n 39 G 87 Y G 88 n 40 G 88 Y U 89 n 41 U 89 Y C 90 n 42 C 90 Y G 91 n 43 G 91 Y C 92 n 44 C 92 Y G 93 n 45 G 93 Y U 94 n 46 U 94 Y CCC 95 n 47 CCC 101 Y 0.8627 0.1651 -0.3961 0.3815 0.0446 0.2468 0.0228 0.1952 -0.2094 0.0904 0.0152 -0.2876 0.0089 -0.1189 -0.0380 0.1893 -0.0030 -0.0453 0.3340 -0.0870 0.3067 refined 37.6314 26.8959 1.4246 X-RAY DIFFRACTION X 1 X 44 X-RAY DIFFRACTION 1 Y 49 Y 94 X-RAY DIFFRACTION 1 author_and_software_defined_assembly PISA 2 dimeric 10170 -60 14690 X G 14 A O2' G 14 1_555 X K 104 J K K 1_555 X A 16 A OP1 A 16 1_555 69.4 X G 14 A O2' G 14 1_555 X K 104 J K K 1_555 X U 18 A O4 U 18 1_555 145.9 X A 16 A OP1 A 16 1_555 X K 104 J K K 1_555 X U 18 A O4 U 18 1_555 112.7 X G 20 A O6 G 20 1_555 X BA 106 L BA BA 1_555 Y U 78 B O4 U 30 1_555 74.7 X A 23 A OP2 A 23 1_555 X K 103 I K K 1_555 X HOH 205 S O HOH 1_555 87.5 X A 23 A OP2 A 23 1_555 X K 103 I K K 1_555 X HOH 207 S O HOH 1_555 118.1 X HOH 205 S O HOH 1_555 X K 103 I K K 1_555 X HOH 207 S O HOH 1_555 63.9 X A 23 A OP2 A 23 1_555 X K 103 I K K 1_555 Y HOH 301 T O HOH 1_555 142.3 X HOH 205 S O HOH 1_555 X K 103 I K K 1_555 Y HOH 301 T O HOH 1_555 114.2 X HOH 207 S O HOH 1_555 X K 103 I K K 1_555 Y HOH 301 T O HOH 1_555 55.8 X A 23 A OP2 A 23 1_555 X K 103 I K K 1_555 Y HOH 302 T O HOH 1_555 136.5 X HOH 205 S O HOH 1_555 X K 103 I K K 1_555 Y HOH 302 T O HOH 1_555 106.1 X HOH 207 S O HOH 1_555 X K 103 I K K 1_555 Y HOH 302 T O HOH 1_555 104.8 Y HOH 301 T O HOH 1_555 X K 103 I K K 1_555 Y HOH 302 T O HOH 1_555 69.2 X G 25 A O6 G 25 1_555 X K 101 G K K 1_555 X G 26 A O6 G 26 1_555 85.4 X G 25 A O6 G 25 1_555 X K 101 G K K 1_555 X G 29 A O6 G 29 1_555 63.9 X G 26 A O6 G 26 1_555 X K 101 G K K 1_555 X G 29 A O6 G 29 1_555 89.0 X G 25 A O6 G 25 1_555 X K 101 G K K 1_555 X G 30 A O6 G 30 1_555 135.1 X G 26 A O6 G 26 1_555 X K 101 G K K 1_555 X G 30 A O6 G 30 1_555 77.6 X G 29 A O6 G 29 1_555 X K 101 G K K 1_555 X G 30 A O6 G 30 1_555 74.5 X G 25 A O6 G 25 1_555 X K 101 G K K 1_555 Y G 65 B O6 G 17 1_555 95.7 X G 26 A O6 G 26 1_555 X K 101 G K K 1_555 Y G 65 B O6 G 17 1_555 71.2 X G 29 A O6 G 29 1_555 X K 101 G K K 1_555 Y G 65 B O6 G 17 1_555 153.1 X G 30 A O6 G 30 1_555 X K 101 G K K 1_555 Y G 65 B O6 G 17 1_555 116.7 X G 25 A O6 G 25 1_555 X K 101 G K K 1_555 Y G 68 B O6 G 20 1_555 60.3 X G 26 A O6 G 26 1_555 X K 101 G K K 1_555 Y G 68 B O6 G 20 1_555 127.1 X G 29 A O6 G 29 1_555 X K 101 G K K 1_555 Y G 68 B O6 G 20 1_555 107.0 X G 30 A O6 G 30 1_555 X K 101 G K K 1_555 Y G 68 B O6 G 20 1_555 154.8 Y G 65 B O6 G 17 1_555 X K 101 G K K 1_555 Y G 68 B O6 G 20 1_555 73.7 X G 25 A O6 G 25 1_555 X K 101 G K K 1_555 Y G 70 B O6 G 22 1_555 144.1 X G 26 A O6 G 26 1_555 X K 101 G K K 1_555 Y G 70 B O6 G 22 1_555 116.1 X G 29 A O6 G 29 1_555 X K 101 G K K 1_555 Y G 70 B O6 G 22 1_555 138.9 X G 30 A O6 G 30 1_555 X K 101 G K K 1_555 Y G 70 B O6 G 22 1_555 79.7 Y G 65 B O6 G 17 1_555 X K 101 G K K 1_555 Y G 70 B O6 G 22 1_555 67.8 Y G 68 B O6 G 20 1_555 X K 101 G K K 1_555 Y G 70 B O6 G 22 1_555 84.2 X G 25 A O6 G 25 1_555 X K 101 G K K 1_555 Y G 72 B O6 G 24 1_555 98.3 X G 26 A O6 G 26 1_555 X K 101 G K K 1_555 Y G 72 B O6 G 24 1_555 155.7 X G 29 A O6 G 29 1_555 X K 101 G K K 1_555 Y G 72 B O6 G 24 1_555 71.6 X G 30 A O6 G 30 1_555 X K 101 G K K 1_555 Y G 72 B O6 G 24 1_555 83.0 Y G 65 B O6 G 17 1_555 X K 101 G K K 1_555 Y G 72 B O6 G 24 1_555 131.7 Y G 68 B O6 G 20 1_555 X K 101 G K K 1_555 Y G 72 B O6 G 24 1_555 74.0 Y G 70 B O6 G 22 1_555 X K 101 G K K 1_555 Y G 72 B O6 G 24 1_555 74.1 X G 25 A O3' G 25 1_555 X K 105 K K K 1_555 X G 25 A O2' G 25 1_555 49.4 X G 25 A O3' G 25 1_555 X K 105 K K K 1_555 X G 26 A OP2 G 26 1_555 48.0 X G 25 A O2' G 25 1_555 X K 105 K K K 1_555 X G 26 A OP2 G 26 1_555 95.4 X G 25 A O3' G 25 1_555 X K 105 K K K 1_555 Y HOH 304 T O HOH 1_555 120.2 X G 25 A O2' G 25 1_555 X K 105 K K K 1_555 Y HOH 304 T O HOH 1_555 70.8 X G 26 A OP2 G 26 1_555 X K 105 K K K 1_555 Y HOH 304 T O HOH 1_555 161.8 X G 25 A O3' G 25 1_555 X K 105 K K K 1_555 Y HOH 305 T O HOH 1_555 106.7 X G 25 A O2' G 25 1_555 X K 105 K K K 1_555 Y HOH 305 T O HOH 1_555 129.5 X G 26 A OP2 G 26 1_555 X K 105 K K K 1_555 Y HOH 305 T O HOH 1_555 88.4 Y HOH 304 T O HOH 1_555 X K 105 K K K 1_555 Y HOH 305 T O HOH 1_555 109.5 X G 25 A O3' G 25 1_555 X K 105 K K K 1_555 Y HOH 306 T O HOH 1_555 104.6 X G 25 A O2' G 25 1_555 X K 105 K K K 1_555 Y HOH 306 T O HOH 1_555 152.7 X G 26 A OP2 G 26 1_555 X K 105 K K K 1_555 Y HOH 306 T O HOH 1_555 57.5 Y HOH 304 T O HOH 1_555 X K 105 K K K 1_555 Y HOH 306 T O HOH 1_555 134.7 Y HOH 305 T O HOH 1_555 X K 105 K K K 1_555 Y HOH 306 T O HOH 1_555 59.0 X G 25 A O6 G 25 1_555 Y K 201 M K K 1_555 X G 29 A O6 G 29 1_555 62.6 X G 25 A O6 G 25 1_555 Y K 201 M K K 1_555 Y G 68 B O6 G 20 1_555 61.8 X G 29 A O6 G 29 1_555 Y K 201 M K K 1_555 Y G 68 B O6 G 20 1_555 95.3 X G 25 A O6 G 25 1_555 Y K 201 M K K 1_555 Y G 72 B O6 G 24 1_555 101.8 X G 29 A O6 G 29 1_555 Y K 201 M K K 1_555 Y G 72 B O6 G 24 1_555 66.0 Y G 68 B O6 G 20 1_555 Y K 201 M K K 1_555 Y G 72 B O6 G 24 1_555 69.3 X G 25 A O6 G 25 1_555 Y K 201 M K K 1_555 Y U 73 B O2' U 25 1_555 150.6 X G 29 A O6 G 29 1_555 Y K 201 M K K 1_555 Y U 73 B O2' U 25 1_555 142.8 Y G 68 B O6 G 20 1_555 Y K 201 M K K 1_555 Y U 73 B O2' U 25 1_555 95.1 Y G 72 B O6 G 24 1_555 Y K 201 M K K 1_555 Y U 73 B O2' U 25 1_555 84.7 X G 25 A O6 G 25 1_555 Y K 201 M K K 1_555 Y U 73 B O2 U 25 1_555 86.1 X G 29 A O6 G 29 1_555 Y K 201 M K K 1_555 Y U 73 B O2 U 25 1_555 148.6 Y G 68 B O6 G 20 1_555 Y K 201 M K K 1_555 Y U 73 B O2 U 25 1_555 68.4 Y G 72 B O6 G 24 1_555 Y K 201 M K K 1_555 Y U 73 B O2 U 25 1_555 126.2 Y U 73 B O2' U 25 1_555 Y K 201 M K K 1_555 Y U 73 B O2 U 25 1_555 67.6 X G 25 A O6 G 25 1_555 Y K 201 M K K 1_555 Y G 74 B O6 G 26 1_555 97.5 X G 29 A O6 G 29 1_555 Y K 201 M K K 1_555 Y G 74 B O6 G 26 1_555 55.0 Y G 68 B O6 G 20 1_555 Y K 201 M K K 1_555 Y G 74 B O6 G 26 1_555 150.2 Y G 72 B O6 G 24 1_555 Y K 201 M K K 1_555 Y G 74 B O6 G 26 1_555 96.9 Y U 73 B O2' U 25 1_555 Y K 201 M K K 1_555 Y G 74 B O6 G 26 1_555 110.2 Y U 73 B O2 U 25 1_555 Y K 201 M K K 1_555 Y G 74 B O6 G 26 1_555 135.2 X G 26 A OP2 G 26 1_555 Y K 202 N K K 1_555 X G 26 A O5' G 26 1_555 47.7 X G 26 A OP2 G 26 1_555 Y K 202 N K K 1_555 Y U 61 B O3' U 13 1_555 167.1 X G 26 A O5' G 26 1_555 Y K 202 N K K 1_555 Y U 61 B O3' U 13 1_555 136.5 X G 26 A OP2 G 26 1_555 Y K 202 N K K 1_555 Y U 61 B O2' U 13 1_555 141.2 X G 26 A O5' G 26 1_555 Y K 202 N K K 1_555 Y U 61 B O2' U 13 1_555 98.0 Y U 61 B O3' U 13 1_555 Y K 202 N K K 1_555 Y U 61 B O2' U 13 1_555 50.2 X G 26 A OP2 G 26 1_555 Y K 202 N K K 1_555 Y U 62 B OP2 U 14 1_555 120.4 X G 26 A O5' G 26 1_555 Y K 202 N K K 1_555 Y U 62 B OP2 U 14 1_555 123.7 Y U 61 B O3' U 13 1_555 Y K 202 N K K 1_555 Y U 62 B OP2 U 14 1_555 46.7 Y U 61 B O2' U 13 1_555 Y K 202 N K K 1_555 Y U 62 B OP2 U 14 1_555 92.2 X G 26 A OP2 G 26 1_555 Y K 202 N K K 1_555 Y HOH 305 T O HOH 1_555 86.8 X G 26 A O5' G 26 1_555 Y K 202 N K K 1_555 Y HOH 305 T O HOH 1_555 90.7 Y U 61 B O3' U 13 1_555 Y K 202 N K K 1_555 Y HOH 305 T O HOH 1_555 104.5 Y U 61 B O2' U 13 1_555 Y K 202 N K K 1_555 Y HOH 305 T O HOH 1_555 74.5 Y U 62 B OP2 U 14 1_555 Y K 202 N K K 1_555 Y HOH 305 T O HOH 1_555 145.0 X G 26 A OP2 G 26 1_555 Y K 202 N K K 1_555 Y HOH 306 T O HOH 1_555 71.7 X G 26 A O5' G 26 1_555 Y K 202 N K K 1_555 Y HOH 306 T O HOH 1_555 117.4 Y U 61 B O3' U 13 1_555 Y K 202 N K K 1_555 Y HOH 306 T O HOH 1_555 106.1 Y U 61 B O2' U 13 1_555 Y K 202 N K K 1_555 Y HOH 306 T O HOH 1_555 128.4 Y U 62 B OP2 U 14 1_555 Y K 202 N K K 1_555 Y HOH 306 T O HOH 1_555 97.0 Y HOH 305 T O HOH 1_555 Y K 202 N K K 1_555 Y HOH 306 T O HOH 1_555 69.2 X HOH 203 S O HOH 1_555 X K 102 H K K 1_555 Y HOH 307 T O HOH 1_555 158.5 Y A 84 B OP1 A 36 1_555 Y K 204 P K K 1_555 D FRU 2 F O6 FRU 1_555 61.0 Y U 86 B O4 U 38 1_555 Y K 203 O K K 1_555 Y G 87 B O6 G 39 1_555 73.7 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 X N9 A 11 A N9 A 11 1 Y 1 X C8 A 11 A C8 A 11 1 Y 1 X N7 A 11 A N7 A 11 1 Y 1 X C5 A 11 A C5 A 11 1 Y 1 X C6 A 11 A C6 A 11 1 Y 1 X N6 A 11 A N6 A 11 1 Y 1 X N1 A 11 A N1 A 11 1 Y 1 X C2 A 11 A C2 A 11 1 Y 1 X N3 A 11 A N3 A 11 1 Y 1 X C4 A 11 A C4 A 11 1 Y 1 X N1 U 13 A N1 U 13 1 Y 1 X C2 U 13 A C2 U 13 1 Y 1 X O2 U 13 A O2 U 13 1 Y 1 X N3 U 13 A N3 U 13 1 Y 1 X C4 U 13 A C4 U 13 1 Y 1 X O4 U 13 A O4 U 13 1 Y 1 X C5 U 13 A C5 U 13 1 Y 1 X C6 U 13 A C6 U 13 1 Y 1 Y N1 U 58 B N1 U 10 1 Y 1 Y C2 U 58 B C2 U 10 1 Y 1 Y O2 U 58 B O2 U 10 1 Y 1 Y N3 U 58 B N3 U 10 1 Y 1 Y C4 U 58 B C4 U 10 1 Y 1 Y O4 U 58 B O4 U 10 1 Y 1 Y C5 U 58 B C5 U 10 1 Y 1 Y C6 U 58 B C6 U 10 1 Y 1 X B N3 O6 G GLC 19 1 2.12 1 -5.79 0.90 105.70 99.91 X X X O5' P OP2 G G G 20 20 20 N 228.400 84.5660 45.230 1.8000 0.0000 0.0000 0.0700 0.0000 -1.8700 0.9520 0.9400 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS U VALUES : WITH TLS ADDED 0.2387 0.2061 0.2076 2.8000 50.0000 453 9193 9646 4.7000 99.9300 26.8630 0.2520 RANDOM 1 THROUGHOUT 0.000 0.8790 0.3220 0.8000 0.8000 1.2000 MAXIMUM LIKELIHOOD MASK 2.8000 50.0000 15 2068 106.36 70.97 144 1909 0 90 0.008 0.012 2277 0.003 0.020 950 1.958 1.395 3547 1.547 3.000 2321 0.099 0.200 397 0.011 0.020 1092 0.002 0.020 485 5.551 6.326 2277 0.5150 0.4470 2.8730 40 658 698 20 100.0000 2.5 93.1 4TS0 9193 1 19.0 11.9 99.0 data scaling Aimless refinement REFMAC 5.8.0069 data extraction PDB_EXTRACT 3.14 Crystal structure of the Spinach RNA aptamer in complex with DFHBI, barium ions 1 N N 2 N N 3 N N 3 N N 3 N N 3 N N 4 N N 4 N N 4 N N 4 N N 4 N N 5 N N 4 N N 4 N N 4 N N 4 N N 4 N N 6 N N 7 N N 7 N N covale 1.588 both X G 43 A O3' G 43 1_555 X CCC 44 A P CCC 44 1_555 covale 1.585 both Y U 94 B O3' U 46 1_555 Y CCC 101 B P CCC 47 1_555 covale 1.433 both A GLC 1 C C1 GLC 1_555 A FRU 2 C O2 FRU 1_555 covale 1.445 both B GLC 1 D C1 GLC 1_555 B FRU 2 D O2 FRU 1_555 covale 1.451 both C GLC 1 E C1 GLC 1_555 C FRU 2 E O2 FRU 1_555 covale 1.462 both D GLC 1 F C1 GLC 1_555 D FRU 2 F O2 FRU 1_555 metalc 2.917 X G 14 A O2' G 14 1_555 X K 104 J K K 1_555 metalc 2.751 X A 16 A OP1 A 16 1_555 X K 104 J K K 1_555 metalc 2.889 X U 18 A O4 U 18 1_555 X K 104 J K K 1_555 metalc 3.076 X G 20 A O6 G 20 1_555 X BA 106 L BA BA 1_555 metalc 3.256 X A 23 A OP2 A 23 1_555 X K 103 I K K 1_555 metalc 3.037 X G 25 A O6 G 25 1_555 X K 101 G K K 1_555 metalc 3.260 X G 25 A O3' G 25 1_555 X K 105 K K K 1_555 metalc 3.037 X G 25 A O2' G 25 1_555 X K 105 K K K 1_555 metalc 2.748 X G 25 A O6 G 25 1_555 Y K 201 M K K 1_555 metalc 2.555 X G 26 A O6 G 26 1_555 X K 101 G K K 1_555 metalc 3.048 X G 26 A OP2 G 26 1_555 X K 105 K K K 1_555 metalc 2.877 X G 26 A OP2 G 26 1_555 Y K 202 N K K 1_555 metalc 3.372 X G 26 A O5' G 26 1_555 Y K 202 N K K 1_555 metalc 3.156 X G 29 A O6 G 29 1_555 X K 101 G K K 1_555 metalc 3.455 X G 29 A O6 G 29 1_555 Y K 201 M K K 1_555 metalc 2.764 X G 30 A O6 G 30 1_555 X K 101 G K K 1_555 metalc 2.862 X K 101 G K K 1_555 Y G 65 B O6 G 17 1_555 metalc 2.645 X K 101 G K K 1_555 Y G 68 B O6 G 20 1_555 metalc 2.729 X K 101 G K K 1_555 Y G 70 B O6 G 22 1_555 metalc 2.930 X K 101 G K K 1_555 Y G 72 B O6 G 24 1_555 metalc 2.053 X K 102 H K K 1_555 X HOH 203 S O HOH 1_555 metalc 2.450 X K 102 H K K 1_555 Y HOH 307 T O HOH 1_555 metalc 2.951 X K 103 I K K 1_555 X HOH 205 S O HOH 1_555 metalc 2.269 X K 103 I K K 1_555 X HOH 207 S O HOH 1_555 metalc 3.399 X K 103 I K K 1_555 Y HOH 301 T O HOH 1_555 metalc 2.648 X K 103 I K K 1_555 Y HOH 302 T O HOH 1_555 metalc 2.833 X K 105 K K K 1_555 Y HOH 304 T O HOH 1_555 metalc 2.647 X K 105 K K K 1_555 Y HOH 305 T O HOH 1_555 metalc 3.404 X K 105 K K K 1_555 Y HOH 306 T O HOH 1_555 metalc 2.948 X BA 106 L BA BA 1_555 Y U 78 B O4 U 30 1_555 metalc 3.428 Y G 56 B O6 G 8 1_555 Y K 205 Q K K 1_555 metalc 3.065 Y U 61 B O3' U 13 1_555 Y K 202 N K K 1_555 metalc 2.499 Y U 61 B O2' U 13 1_555 Y K 202 N K K 1_555 metalc 3.129 Y U 62 B OP2 U 14 1_555 Y K 202 N K K 1_555 metalc 2.841 Y G 68 B O6 G 20 1_555 Y K 201 M K K 1_555 metalc 3.065 Y G 72 B O6 G 24 1_555 Y K 201 M K K 1_555 metalc 2.895 Y U 73 B O2' U 25 1_555 Y K 201 M K K 1_555 metalc 2.659 Y U 73 B O2 U 25 1_555 Y K 201 M K K 1_555 metalc 3.077 Y G 74 B O6 G 26 1_555 Y K 201 M K K 1_555 metalc 2.828 Y A 84 B OP1 A 36 1_555 Y K 204 P K K 1_555 metalc 3.014 Y U 86 B O4 U 38 1_555 Y K 203 O K K 1_555 metalc 3.070 Y G 87 B O6 G 39 1_555 Y K 203 O K K 1_555 metalc 2.918 Y K 202 N K K 1_555 Y HOH 305 T O HOH 1_555 metalc 2.403 Y K 202 N K K 1_555 Y HOH 306 T O HOH 1_555 metalc 2.624 Y K 204 P K K 4_465 D FRU 2 F O6 FRU 1_555 hydrog WATSON-CRICK X G 1 A N1 G 1 1_555 Y CCC 101 B N3 CCC 47 1_555 hydrog WATSON-CRICK X G 1 A N2 G 1 1_555 Y CCC 101 B O2 CCC 47 1_555 hydrog WATSON-CRICK X G 1 A O6 G 1 1_555 Y CCC 101 B N4 CCC 47 1_555 hydrog WATSON-CRICK X A 2 A N1 A 2 1_555 Y U 94 B N3 U 46 1_555 hydrog WATSON-CRICK X A 2 A N6 A 2 1_555 Y U 94 B O4 U 46 1_555 hydrog WATSON-CRICK X C 3 A N3 C 3 1_555 Y G 93 B N1 G 45 1_555 hydrog WATSON-CRICK X C 3 A N4 C 3 1_555 Y G 93 B O6 G 45 1_555 hydrog WATSON-CRICK X C 3 A O2 C 3 1_555 Y G 93 B N2 G 45 1_555 hydrog WATSON-CRICK X G 4 A N1 G 4 1_555 Y C 92 B N3 C 44 1_555 hydrog WATSON-CRICK X G 4 A N2 G 4 1_555 Y C 92 B O2 C 44 1_555 hydrog WATSON-CRICK X G 4 A O6 G 4 1_555 Y C 92 B N4 C 44 1_555 hydrog WATSON-CRICK X C 5 A N3 C 5 1_555 Y G 91 B N1 G 43 1_555 hydrog WATSON-CRICK X C 5 A N4 C 5 1_555 Y G 91 B O6 G 43 1_555 hydrog WATSON-CRICK X C 5 A O2 C 5 1_555 Y G 91 B N2 G 43 1_555 hydrog WATSON-CRICK X G 6 A N1 G 6 1_555 Y C 90 B N3 C 42 1_555 hydrog WATSON-CRICK X G 6 A N2 G 6 1_555 Y C 90 B O2 C 42 1_555 hydrog WATSON-CRICK X G 6 A O6 G 6 1_555 Y C 90 B N4 C 42 1_555 hydrog WATSON-CRICK X A 7 A N1 A 7 1_555 Y U 89 B N3 U 41 1_555 hydrog WATSON-CRICK X A 7 A N6 A 7 1_555 Y U 89 B O4 U 41 1_555 hydrog WATSON-CRICK X C 8 A N3 C 8 1_555 Y G 88 B N1 G 40 1_555 hydrog WATSON-CRICK X C 8 A N4 C 8 1_555 Y G 88 B O6 G 40 1_555 hydrog WATSON-CRICK X C 8 A O2 C 8 1_555 Y G 88 B N2 G 40 1_555 hydrog WATSON-CRICK X C 9 A N3 C 9 1_555 Y G 87 B N1 G 39 1_555 hydrog WATSON-CRICK X C 9 A N4 C 9 1_555 Y G 87 B O6 G 39 1_555 hydrog WATSON-CRICK X C 9 A O2 C 9 1_555 Y G 87 B N2 G 39 1_555 hydrog TYPE_6_PAIR X G 10 A N1 G 10 1_555 X G 14 A O6 G 14 1_555 hydrog TYPE_6_PAIR X G 10 A N2 G 10 1_555 X G 14 A N7 G 14 1_555 hydrog G-C PAIR X G 10 A O6 G 10 1_555 Y C 85 B N4 C 37 1_555 hydrog WATSON-CRICK X A 12 A N1 A 12 1_555 Y U 86 B N3 U 38 1_555 hydrog WATSON-CRICK X A 12 A N6 A 12 1_555 Y U 86 B O4 U 38 1_555 hydrog WATSON-CRICK X G 14 A N1 G 14 1_555 Y C 85 B N3 C 37 1_555 hydrog WATSON-CRICK X G 14 A N2 G 14 1_555 Y C 85 B O2 C 37 1_555 hydrog WATSON-CRICK X G 14 A O6 G 14 1_555 Y C 85 B N4 C 37 1_555 hydrog WATSON-CRICK X A 17 A N1 A 17 1_555 Y U 82 B N3 U 34 1_555 hydrog WATSON-CRICK X A 17 A N6 A 17 1_555 Y U 82 B O4 U 34 1_555 hydrog A-A MISPAIR X A 17 A N3 A 17 1_555 Y A 84 B N6 A 36 1_555 hydrog U-G MISPAIR X U 18 A O2 U 18 1_555 Y G 81 B N1 G 33 1_555 hydrog WATSON-CRICK X G 19 A N1 G 19 1_555 Y C 80 B N3 C 32 1_555 hydrog WATSON-CRICK X G 19 A N2 G 19 1_555 Y C 80 B O2 C 32 1_555 hydrog WATSON-CRICK X G 19 A O6 G 19 1_555 Y C 80 B N4 C 32 1_555 hydrog WATSON-CRICK X G 20 A N1 G 20 1_555 Y C 79 B N3 C 31 1_555 hydrog WATSON-CRICK X G 20 A N2 G 20 1_555 Y C 79 B O2 C 31 1_555 hydrog WATSON-CRICK X G 20 A O6 G 20 1_555 Y C 79 B N4 C 31 1_555 hydrog TYPE_16_PAIR X U 21 A N3 U 21 1_555 Y U 78 B O2 U 30 1_555 hydrog TYPE_16_PAIR X U 21 A O4 U 21 1_555 Y U 78 B N3 U 30 1_555 hydrog WATSON-CRICK X G 22 A N1 G 22 1_555 Y C 77 B N3 C 29 1_555 hydrog WATSON-CRICK X G 22 A N2 G 22 1_555 Y C 77 B O2 C 29 1_555 hydrog WATSON-CRICK X G 22 A O6 G 22 1_555 Y C 77 B N4 C 29 1_555 hydrog TYPE_8_PAIR X A 23 A N1 A 23 1_555 Y G 76 B N1 G 28 1_555 hydrog TYPE_8_PAIR X A 23 A N6 A 23 1_555 Y G 76 B O6 G 28 1_555 hydrog A-A MISPAIR X A 24 A N1 A 24 1_555 Y A 75 B N6 A 27 1_555 hydrog TYPE_6_PAIR X G 25 A N1 G 25 1_555 X G 29 A O6 G 29 1_555 hydrog TYPE_6_PAIR X G 25 A N2 G 25 1_555 X G 29 A N7 G 29 1_555 hydrog TYPE_6_PAIR X G 25 A N7 G 25 1_555 Y G 68 B N2 G 20 1_555 hydrog TYPE_6_PAIR X G 25 A O6 G 25 1_555 Y G 68 B N1 G 20 1_555 hydrog TYPE_6_PAIR X G 26 A N1 G 26 1_555 X G 30 A O6 G 30 1_555 hydrog TYPE_6_PAIR X G 26 A N2 G 26 1_555 X G 30 A N7 G 30 1_555 hydrog TYPE_6_PAIR X G 26 A N7 G 26 1_555 Y G 65 B N2 G 17 1_555 hydrog TYPE_6_PAIR X G 26 A O6 G 26 1_555 Y G 65 B N1 G 17 1_555 hydrog C-U MISPAIR X C 28 A N4 C 28 1_555 Y U 66 B O4 U 18 1_555 hydrog WATSON-CRICK X C 28 A N3 C 28 1_555 Y G 74 B N1 G 26 1_555 hydrog WATSON-CRICK X C 28 A N4 C 28 1_555 Y G 74 B O6 G 26 1_555 hydrog WATSON-CRICK X C 28 A O2 C 28 1_555 Y G 74 B N2 G 26 1_555 hydrog TYPE_6_PAIR X G 29 A N1 G 29 1_555 Y G 72 B O6 G 24 1_555 hydrog TYPE_6_PAIR X G 29 A N2 G 29 1_555 Y G 72 B N7 G 24 1_555 hydrog TYPE_6_PAIR X G 30 A N1 G 30 1_555 Y G 70 B O6 G 22 1_555 hydrog TYPE_6_PAIR X G 30 A N2 G 30 1_555 Y G 70 B N7 G 22 1_555 hydrog WATSON-CRICK X U 32 A N3 U 32 1_555 Y A 64 B N1 A 16 1_555 hydrog WATSON-CRICK X U 32 A O4 U 32 1_555 Y A 64 B N6 A 16 1_555 hydrog WATSON-CRICK X C 33 A N3 C 33 1_555 Y G 63 B N1 G 15 1_555 hydrog WATSON-CRICK X C 33 A N4 C 33 1_555 Y G 63 B O6 G 15 1_555 hydrog WATSON-CRICK X C 33 A O2 C 33 1_555 Y G 63 B N2 G 15 1_555 hydrog WATSON-CRICK X C 34 A N3 C 34 1_555 Y G 60 B N1 G 12 1_555 hydrog WATSON-CRICK X C 34 A N4 C 34 1_555 Y G 60 B O6 G 12 1_555 hydrog WATSON-CRICK X C 34 A O2 C 34 1_555 Y G 60 B N2 G 12 1_555 hydrog WATSON-CRICK X A 35 A N1 A 35 1_555 Y U 59 B N3 U 11 1_555 hydrog WATSON-CRICK X A 35 A N6 A 35 1_555 Y U 59 B O4 U 11 1_555 hydrog WATSON-CRICK X G 36 A N1 G 36 1_555 Y C 57 B N3 C 9 1_555 hydrog WATSON-CRICK X G 36 A N2 G 36 1_555 Y C 57 B O2 C 9 1_555 hydrog WATSON-CRICK X G 36 A O6 G 36 1_555 Y C 57 B N4 C 9 1_555 hydrog WATSON-CRICK X C 37 A N3 C 37 1_555 Y G 56 B N1 G 8 1_555 hydrog WATSON-CRICK X C 37 A N4 C 37 1_555 Y G 56 B O6 G 8 1_555 hydrog WATSON-CRICK X C 37 A O2 C 37 1_555 Y G 56 B N2 G 8 1_555 hydrog WATSON-CRICK X C 38 A N3 C 38 1_555 Y G 55 B N1 G 7 1_555 hydrog WATSON-CRICK X C 38 A N4 C 38 1_555 Y G 55 B O6 G 7 1_555 hydrog WATSON-CRICK X C 38 A O2 C 38 1_555 Y G 55 B N2 G 7 1_555 hydrog WATSON-CRICK X G 39 A N1 G 39 1_555 Y C 54 B N3 C 6 1_555 hydrog WATSON-CRICK X G 39 A N2 G 39 1_555 Y C 54 B O2 C 6 1_555 hydrog WATSON-CRICK X G 39 A O6 G 39 1_555 Y C 54 B N4 C 6 1_555 hydrog WATSON-CRICK X G 40 A N1 G 40 1_555 Y C 53 B N3 C 5 1_555 hydrog WATSON-CRICK X G 40 A N2 G 40 1_555 Y C 53 B O2 C 5 1_555 hydrog WATSON-CRICK X G 40 A O6 G 40 1_555 Y C 53 B N4 C 5 1_555 hydrog WATSON-CRICK X C 41 A N3 C 41 1_555 Y G 52 B N1 G 4 1_555 hydrog WATSON-CRICK X C 41 A N4 C 41 1_555 Y G 52 B O6 G 4 1_555 hydrog WATSON-CRICK X C 41 A O2 C 41 1_555 Y G 52 B N2 G 4 1_555 hydrog WATSON-CRICK X U 42 A N3 U 42 1_555 Y A 51 B N1 A 3 1_555 hydrog WATSON-CRICK X U 42 A O4 U 42 1_555 Y A 51 B N6 A 3 1_555 hydrog WATSON-CRICK X G 43 A N1 G 43 1_555 Y C 50 B N3 C 2 1_555 hydrog WATSON-CRICK X G 43 A N2 G 43 1_555 Y C 50 B O2 C 2 1_555 hydrog WATSON-CRICK X G 43 A O6 G 43 1_555 Y C 50 B N4 C 2 1_555 hydrog WATSON-CRICK X CCC 44 A N3 CCC 44 1_555 Y G 49 B N1 G 1 1_555 hydrog WATSON-CRICK X CCC 44 A N4 CCC 44 1_555 Y G 49 B O6 G 1 1_555 hydrog WATSON-CRICK X CCC 44 A O2 CCC 44 1_555 Y G 49 B N2 G 1 1_555 hydrog HOOGSTEEN Y U 61 B N3 U 13 1_555 Y A 64 B N7 A 16 1_555 hydrog HOOGSTEEN Y U 61 B O4 U 13 1_555 Y A 64 B N6 A 16 1_555 hydrog TYPE_6_PAIR Y G 65 B N7 G 17 1_555 Y G 70 B N2 G 22 1_555 hydrog TYPE_6_PAIR Y G 65 B O6 G 17 1_555 Y G 70 B N1 G 22 1_555 hydrog U-U MISPAIR Y U 66 B O2 U 18 1_555 Y U 73 B N3 U 25 1_555 hydrog TYPE_6_PAIR Y G 68 B N7 G 20 1_555 Y G 72 B N2 G 24 1_555 hydrog TYPE_6_PAIR Y G 68 B O6 G 20 1_555 Y G 72 B N1 G 24 1_555 RNA aptamer, fluorescence, G-quadruplex, RNA 4TS0 PDB 1 1 4TS0 4TS0 PDB 2 1 4TS0 1 44 4TS0 1 44 4TS0 X 1 1 44 49 101 4TS0 49 101 4TS0 Y 2 1 47 19 P 21 21 21