0.030497 0.017608 0.000000 0.000000 0.035215 0.000000 0.000000 0.000000 0.009311 0.00000 0.00000 0.00000 Shalev, M. Kondo, J. Adir, N. Baasov, T. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 6 90.00 90.00 120.00 32.790 32.790 107.400 C10 H14 N5 O7 P 347.221 y ADENOSINE-5'-MONOPHOSPHATE RNA linking C21 H41 N5 O11 539.577 APRAMYCIN NEBRAMYCIN II; 4-O-(3ALPHA-AMINO-6ALPHA-((4-AMINO-4-DEOXY-ALPHA-D-GLUCOPYRANOSYL)OXY)-2,3,4,5ABETA,6,7,8,8AALPHA-OCTAHYDRO-8BETA-HYDROXY-7BETA-(METHYLAMINO)PYRANO(3,2-B)PYRAN-2ALPHA-YL)-2-DEOXY-D-STREPTAMINE non-polymer C9 H14 N3 O8 P 323.197 y CYTIDINE-5'-MONOPHOSPHATE RNA linking C10 H14 N5 O8 P 363.221 y GUANOSINE-5'-MONOPHOSPHATE RNA linking H2 O 18.015 WATER 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 S C N 39 R C N 40 N C N 41 S C N 42 R C N 43 R C N 44 S C N 45 R C N 46 N C N 47 N O N 48 N O N 49 N N N 50 N N N 51 N O N 52 N O N 53 N O N 54 R C N 55 R C N 56 S C N 57 S C N 58 S C N 59 N C N 60 N O N 61 N N N 62 N O N 63 N O N 64 N O N 65 R C N 66 R C N 67 S C N 68 R C N 69 N C N 70 S C N 71 N N N 72 N N N 73 N O N 74 N O N 75 N H N 76 N H N 77 N H N 78 N H N 79 N H N 80 N H N 81 N H N 82 N H N 83 N H N 84 N H N 85 N H N 86 N H N 87 N H 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 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 H N 111 N H N 112 N H N 113 N H N 114 N H N 115 N H N 116 N O N 117 N P N 118 N O N 119 N O N 120 N O N 121 N C N 122 R C N 123 N O N 124 S C N 125 N O N 126 R C N 127 N O N 128 R C N 129 N N N 130 N C N 131 N O N 132 N N N 133 N C N 134 N N N 135 N C N 136 N C 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 H N 149 N H N 150 N H N 151 N O N 152 N P N 153 N O N 154 N O N 155 N O N 156 N C N 157 R C N 158 N O N 159 S C N 160 N O N 161 R C N 162 N O N 163 R C Y 164 N N Y 165 N C Y 166 N N Y 167 N C N 168 N C N 169 N O N 170 N N N 171 N C N 172 N N N 173 N N Y 174 N C 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 H N 182 N H N 183 N H N 184 N H N 185 N H N 186 N H N 187 N H N 188 N H N 189 N O N 190 N H N 191 N H N 192 N O N 193 N P N 194 N O N 195 N O N 196 N O N 197 N C N 198 R C N 199 N O N 200 S C N 201 N O N 202 R C N 203 N O N 204 R C N 205 N N N 206 N C N 207 N O N 208 N N N 209 N C N 210 N O N 211 N C N 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 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 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 sing N 65 N sing N 66 N sing N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N sing 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 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 sing N 106 N sing N 107 N sing N 108 N sing N 109 N sing 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 sing N 122 N sing N 123 N doub 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 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 doub N 148 N sing N 149 N doub N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N doub N 155 N sing N 156 N sing N 157 N sing N 158 N sing N 159 N doub N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N sing N 171 N sing N 172 N sing N 173 N sing N 174 N sing N 175 N sing N 176 N sing N 177 N sing N 178 N sing N 179 N sing N 180 N sing Y 181 N sing Y 182 N sing Y 183 N doub N 184 N sing Y 185 N sing N 186 N sing Y 187 N doub N 188 N doub N 189 N sing N 190 N sing N 191 N sing N 192 N sing N 193 N doub 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 doub N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing 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 doub N 226 N sing N 227 N sing N 228 N sing N 229 N doub N 230 N sing N 231 N doub N 232 N sing N 233 N sing US Proc.Natl.Acad.Sci.USA PNASA6 0040 0027-8424 110 13333 13338 10.1073/pnas.1307365110 23898171 Identification of the molecular attributes required for aminoglycoside activity against Leishmania. 2013 10.2210/pdb4k31/pdb pdb_00004k31 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 2012-01-01 ADSC QUANTUM 315r SINGLE WAVELENGTH M x-ray 1 0.9394 1.0 ID14-4 ESRF 0.9394 SYNCHROTRON ESRF BEAMLINE ID14-4 7356.393 RNA (5'-R(*UP*UP*GP*CP*GP*UP*CP*GP*UP*UP*CP*CP*GP*GP*AP*AP*AP*AP*GP*UP*CP*GP*C)-3') 2 syn polymer 539.577 APRAMYCIN 4 syn non-polymer 18.015 water 209 nat water no no UUGCGUCGUUCCGGAAAAGUCGC UUGCGUCGUUCCGGAAAAGUCGC B,C polyribonucleotide n n n n n n n n n n n n n n n n n n n n n n n 1 2.27 45.71 VAPOR DIFFUSION, HANGING DROP 7.0 50 mM Na cacodylate, 1 mM spermine tetrahydrochloride, 1% 2-methyl-2,4-pentadiol (vs. 40% reservoir), 100-250 mM NaCl, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.15K 293.15 -2.870 1 19 B 3 C 23 -0.905 B_G3:C23_C 1 3.569 -0.174 0.082 -0.157 4.920 1 19 B 4 C 22 -0.303 B_C4:G22_C 2 -5.312 0.123 -0.014 -0.113 -5.027 1 19 B 5 C 21 2.575 B_G5:C21_C 3 -18.351 -0.135 -0.118 -0.130 -1.625 1 16 B 6 C 20 6.521 B_U6:U20_C 4 -14.583 2.477 0.219 -1.699 6.215 1 19 B 7 C 19 -1.032 B_C7:G19_C 5 -11.712 0.240 -0.112 -0.178 9.899 1 8 B 8 C 17 -17.870 B_G8:A17_C 6 -5.092 0.250 -0.140 1.629 17.014 1 20 B 9 C 16 -4.935 B_U9:A16_C 7 -17.682 0.055 0.086 0.006 15.313 1 20 B 10 C 15 -0.609 B_U10:A15_C 8 -16.466 -0.140 -0.019 0.054 2.686 1 19 B 11 C 14 1.365 B_C11:G14_C 9 -10.951 0.249 0.183 -0.149 -4.606 1 19 B 12 C 13 0.675 B_C12:G13_C 10 -6.268 -0.006 0.266 -0.170 1.366 1 19 B 13 C 12 1.392 B_G13:C12_C 11 -9.164 0.044 0.410 -0.179 -8.965 1 19 B 14 C 11 2.187 B_G14:C11_C 12 -14.344 -0.130 -0.405 -0.053 -12.583 1 20 B 15 C 10 0.729 B_A15:U10_C 13 -13.128 0.184 -0.126 -0.021 -20.769 1 20 B 16 C 9 -2.822 B_A16:U9_C 14 -16.228 0.041 0.246 -0.069 -6.822 1 8 B 17 C 8 -10.736 B_A17:G8_C 15 -8.910 -0.263 -0.201 1.612 -5.572 1 19 B 19 C 7 0.042 B_G19:C7_C 16 -11.891 -0.206 -0.059 -0.145 2.180 1 16 B 20 C 6 6.054 B_U20:U6_C 17 -14.955 -2.439 0.242 -1.677 5.113 1 19 B 21 C 5 2.296 B_C21:G5_C 18 -18.185 0.151 -0.136 -0.152 -5.063 1 19 B 22 C 4 -0.338 B_G22:C4_C 19 -5.630 -0.128 -0.029 -0.111 2.922 1 19 B 23 C 3 -0.953 B_C23:G3_C 20 3.169 0.207 0.104 -0.160 3.253 32.808 B B 3 4 -1.778 C C 23 22 3.205 -1.004 -0.281 -1.829 BB_G3C4:G22C23_CC 1 0.576 -1.020 32.788 -3.068 0.595 2.497 29.661 B B 4 5 22.138 C C 22 21 3.407 11.070 -0.186 -1.849 BB_C4G5:C21G22_CC 2 -0.622 1.244 27.554 -5.799 0.241 3.059 46.214 B B 5 6 6.291 C C 21 20 3.176 4.929 0.515 -0.931 BB_G5U6:U20C21_CC 3 -0.660 0.842 45.960 -1.587 -0.710 2.431 27.054 B B 6 7 8.636 C C 20 19 2.895 3.969 -0.218 -1.725 BB_U6C7:G19U20_CC 4 7.877 -17.140 25.601 -4.532 2.140 2.599 33.110 B B 7 8 10.028 C C 19 17 3.395 5.667 0.776 -3.573 BB_C7G8:A17G19_CC 5 -5.042 8.923 32.253 -7.158 -2.151 2.294 28.878 B B 8 9 15.432 C C 17 16 2.867 7.533 -0.381 -1.884 BB_G8U9:A16A17_CC 6 -7.006 14.351 27.020 -5.145 -0.508 2.904 36.760 B B 9 10 9.868 C C 16 15 3.259 6.183 0.296 -1.603 BB_U9U10:A15A16_CC 7 -4.098 6.541 36.029 -3.345 -1.001 2.943 34.800 B B 10 11 12.174 C C 15 14 3.345 7.231 -0.239 -1.652 BB_U10C11:G14A15_CC 8 -0.072 0.121 34.063 -3.834 0.389 2.813 32.306 B B 11 12 12.144 C C 14 13 3.264 6.704 -0.041 -1.835 BB_C11C12:G13G14_CC 9 2.504 -4.535 31.524 -4.416 0.491 2.087 24.810 B B 12 13 24.596 C C 13 12 3.249 10.260 0.017 -2.152 BB_C12G13:C12G13_CC 10 -0.095 0.227 22.619 -7.658 -0.064 2.741 34.133 B B 13 14 19.839 C C 12 11 3.505 11.429 -0.033 -1.740 BB_G13G14:C11C12_CC 11 1.537 -2.668 32.181 -4.748 0.296 2.670 34.261 B B 14 15 15.296 C C 11 10 3.171 8.900 0.125 -1.474 BB_G14A15:U10C11_CC 12 -3.300 5.673 32.958 -3.778 -0.685 3.185 36.916 B B 15 16 5.270 C C 10 9 3.320 3.332 -0.317 -1.490 BB_A15A16:U9U10_CC 13 -0.991 1.568 36.757 -2.801 0.368 2.347 31.103 B B 16 17 9.886 C C 9 8 2.772 5.156 0.307 -1.905 BB_A16A17:G8U9_CC 14 11.473 -21.997 28.504 -4.361 1.224 2.268 30.920 B B 17 19 15.597 C C 8 7 3.427 8.195 -0.760 -3.513 BB_A17G19:C7G8_CC 15 4.182 -7.960 29.552 -8.004 2.148 2.461 26.903 B B 19 20 8.328 C C 7 6 2.900 3.808 0.173 -1.729 BB_G19U20:U6C7_CC 16 -7.788 17.032 25.492 -4.539 -2.055 3.075 45.641 B B 20 21 6.223 C C 6 5 3.199 4.818 -0.516 -0.952 BB_U20C21:G5U6_CC 17 1.125 -1.453 45.387 -1.632 0.759 2.492 29.655 B B 21 22 22.246 C C 5 4 3.408 11.118 0.211 -1.855 BB_C21G22:C4G5_CC 18 0.882 -1.765 27.521 -5.822 -0.239 3.250 33.018 B B 22 23 -1.603 C C 4 3 3.210 -0.911 0.309 -1.819 BB_G22C23:G3C4_CC 19 -0.782 1.376 32.996 -3.047 -0.675 chem_comp chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model struct_site repository Initial release Database references Data collection Database references Derived calculations Refinement description Structure summary 1 0 2013-07-31 1 1 2013-09-04 1 2 2023-09-20 _chem_comp.pdbx_synonyms _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2013-04-10 REL REL AM2 APRAMYCIN HOH water 38568 Leishmania sample 2G5K pdb entry 2G5K PDB experimental model AM2 51 2 AM2 AM2 101 B AM2 54 2 AM2 AM2 102 B AM2 52 2 AM2 AM2 101 C AM2 53 2 AM2 AM2 102 C HOH 3 3 HOH HOH 201 B HOH 6 3 HOH HOH 202 B HOH 8 3 HOH HOH 203 B HOH 10 3 HOH HOH 204 B HOH 11 3 HOH HOH 205 B HOH 15 3 HOH HOH 206 B HOH 19 3 HOH HOH 207 B HOH 22 3 HOH HOH 208 B HOH 24 3 HOH HOH 209 B HOH 25 3 HOH HOH 210 B HOH 26 3 HOH HOH 211 B HOH 27 3 HOH HOH 212 B HOH 30 3 HOH HOH 213 B HOH 32 3 HOH HOH 214 B HOH 34 3 HOH HOH 215 B HOH 35 3 HOH HOH 216 B HOH 37 3 HOH HOH 217 B HOH 38 3 HOH HOH 218 B HOH 40 3 HOH HOH 219 B HOH 41 3 HOH HOH 220 B HOH 44 3 HOH HOH 221 B HOH 46 3 HOH HOH 222 B HOH 48 3 HOH HOH 223 B HOH 49 3 HOH HOH 224 B HOH 52 3 HOH HOH 225 B HOH 56 3 HOH HOH 226 B HOH 57 3 HOH HOH 227 B HOH 59 3 HOH HOH 228 B HOH 61 3 HOH HOH 229 B HOH 62 3 HOH HOH 230 B HOH 67 3 HOH HOH 231 B HOH 68 3 HOH HOH 232 B HOH 69 3 HOH HOH 233 B HOH 71 3 HOH HOH 234 B HOH 75 3 HOH HOH 235 B HOH 77 3 HOH HOH 236 B HOH 78 3 HOH HOH 237 B HOH 79 3 HOH HOH 238 B HOH 80 3 HOH HOH 239 B HOH 81 3 HOH HOH 240 B HOH 83 3 HOH HOH 241 B HOH 87 3 HOH HOH 242 B HOH 90 3 HOH HOH 243 B HOH 93 3 HOH HOH 244 B HOH 97 3 HOH HOH 245 B HOH 98 3 HOH HOH 246 B HOH 99 3 HOH HOH 247 B HOH 101 3 HOH HOH 248 B HOH 102 3 HOH HOH 249 B HOH 104 3 HOH HOH 250 B HOH 105 3 HOH HOH 251 B HOH 107 3 HOH HOH 252 B HOH 108 3 HOH HOH 253 B HOH 109 3 HOH HOH 254 B HOH 110 3 HOH HOH 255 B HOH 115 3 HOH HOH 256 B HOH 117 3 HOH HOH 257 B HOH 119 3 HOH HOH 258 B HOH 120 3 HOH HOH 259 B HOH 121 3 HOH HOH 260 B HOH 123 3 HOH HOH 261 B HOH 125 3 HOH HOH 262 B HOH 128 3 HOH HOH 263 B HOH 129 3 HOH HOH 264 B HOH 130 3 HOH HOH 265 B HOH 131 3 HOH HOH 266 B HOH 133 3 HOH HOH 267 B HOH 134 3 HOH HOH 268 B HOH 136 3 HOH HOH 269 B HOH 139 3 HOH HOH 270 B HOH 141 3 HOH HOH 271 B HOH 145 3 HOH HOH 272 B HOH 146 3 HOH HOH 273 B HOH 149 3 HOH HOH 274 B HOH 151 3 HOH HOH 275 B HOH 152 3 HOH HOH 276 B HOH 155 3 HOH HOH 277 B HOH 158 3 HOH HOH 278 B HOH 160 3 HOH HOH 279 B HOH 161 3 HOH HOH 280 B HOH 162 3 HOH HOH 281 B HOH 165 3 HOH HOH 282 B HOH 166 3 HOH HOH 283 B HOH 167 3 HOH HOH 284 B HOH 168 3 HOH HOH 285 B HOH 170 3 HOH HOH 286 B HOH 171 3 HOH HOH 287 B HOH 172 3 HOH HOH 288 B HOH 173 3 HOH HOH 289 B HOH 174 3 HOH HOH 290 B HOH 177 3 HOH HOH 291 B HOH 178 3 HOH HOH 292 B HOH 183 3 HOH HOH 293 B HOH 185 3 HOH HOH 294 B HOH 186 3 HOH HOH 295 B HOH 189 3 HOH HOH 296 B HOH 190 3 HOH HOH 297 B HOH 192 3 HOH HOH 298 B HOH 194 3 HOH HOH 299 B HOH 195 3 HOH HOH 300 B HOH 197 3 HOH HOH 301 B HOH 199 3 HOH HOH 302 B HOH 201 3 HOH HOH 303 B HOH 202 3 HOH HOH 304 B HOH 204 3 HOH HOH 305 B HOH 208 3 HOH HOH 306 B HOH 209 3 HOH HOH 307 B HOH 1 3 HOH HOH 308 B HOH 2 3 HOH HOH 201 C HOH 12 3 HOH HOH 202 C HOH 4 3 HOH HOH 203 C HOH 5 3 HOH HOH 204 C HOH 7 3 HOH HOH 205 C HOH 9 3 HOH HOH 206 C HOH 13 3 HOH HOH 207 C HOH 14 3 HOH HOH 208 C HOH 16 3 HOH HOH 209 C HOH 17 3 HOH HOH 210 C HOH 18 3 HOH HOH 211 C HOH 20 3 HOH HOH 212 C HOH 21 3 HOH HOH 213 C HOH 23 3 HOH HOH 214 C HOH 28 3 HOH HOH 215 C HOH 29 3 HOH HOH 216 C HOH 31 3 HOH HOH 217 C HOH 33 3 HOH HOH 218 C HOH 36 3 HOH HOH 219 C HOH 39 3 HOH HOH 220 C HOH 42 3 HOH HOH 221 C HOH 43 3 HOH HOH 222 C HOH 45 3 HOH HOH 223 C HOH 47 3 HOH HOH 224 C HOH 50 3 HOH HOH 225 C HOH 51 3 HOH HOH 226 C HOH 53 3 HOH HOH 227 C HOH 54 3 HOH HOH 228 C HOH 55 3 HOH HOH 229 C HOH 58 3 HOH HOH 230 C HOH 60 3 HOH HOH 231 C HOH 63 3 HOH HOH 232 C HOH 64 3 HOH HOH 233 C HOH 65 3 HOH HOH 234 C HOH 66 3 HOH HOH 235 C HOH 70 3 HOH HOH 236 C HOH 72 3 HOH HOH 237 C HOH 73 3 HOH HOH 238 C HOH 74 3 HOH HOH 239 C HOH 76 3 HOH HOH 240 C HOH 82 3 HOH HOH 241 C HOH 84 3 HOH HOH 242 C HOH 85 3 HOH HOH 243 C HOH 86 3 HOH HOH 244 C HOH 88 3 HOH HOH 245 C HOH 89 3 HOH HOH 246 C HOH 91 3 HOH HOH 247 C HOH 92 3 HOH HOH 248 C HOH 94 3 HOH HOH 249 C HOH 95 3 HOH HOH 250 C HOH 96 3 HOH HOH 251 C HOH 100 3 HOH HOH 252 C HOH 103 3 HOH HOH 253 C HOH 106 3 HOH HOH 254 C HOH 111 3 HOH HOH 255 C HOH 112 3 HOH HOH 256 C HOH 113 3 HOH HOH 257 C HOH 114 3 HOH HOH 258 C HOH 116 3 HOH HOH 259 C HOH 118 3 HOH HOH 260 C HOH 122 3 HOH HOH 261 C HOH 124 3 HOH HOH 262 C HOH 126 3 HOH HOH 263 C HOH 127 3 HOH HOH 264 C HOH 132 3 HOH HOH 265 C HOH 135 3 HOH HOH 266 C HOH 137 3 HOH HOH 267 C HOH 138 3 HOH HOH 268 C HOH 140 3 HOH HOH 269 C HOH 142 3 HOH HOH 270 C HOH 143 3 HOH HOH 271 C HOH 144 3 HOH HOH 272 C HOH 147 3 HOH HOH 273 C HOH 148 3 HOH HOH 274 C HOH 150 3 HOH HOH 275 C HOH 153 3 HOH HOH 276 C HOH 154 3 HOH HOH 277 C HOH 156 3 HOH HOH 278 C HOH 157 3 HOH HOH 279 C HOH 159 3 HOH HOH 280 C HOH 163 3 HOH HOH 281 C HOH 164 3 HOH HOH 282 C HOH 169 3 HOH HOH 283 C HOH 175 3 HOH HOH 284 C HOH 176 3 HOH HOH 285 C HOH 179 3 HOH HOH 286 C HOH 180 3 HOH HOH 287 C HOH 181 3 HOH HOH 288 C HOH 182 3 HOH HOH 289 C HOH 184 3 HOH HOH 290 C HOH 187 3 HOH HOH 291 C HOH 188 3 HOH HOH 292 C HOH 191 3 HOH HOH 293 C HOH 193 3 HOH HOH 294 C HOH 196 3 HOH HOH 295 C HOH 198 3 HOH HOH 296 C HOH 200 3 HOH HOH 297 C HOH 203 3 HOH HOH 298 C HOH 205 3 HOH HOH 299 C HOH 206 3 HOH HOH 300 C HOH 207 3 HOH HOH 301 C n 1 1 B U 2 n 2 U 2 B G 3 n 3 G 3 B C 4 n 4 C 4 B G 5 n 5 G 5 B U 6 n 6 U 6 B C 7 n 7 C 7 B G 8 n 8 G 8 B U 9 n 9 U 9 B U 10 n 10 U 10 B C 11 n 11 C 11 B C 12 n 12 C 12 B G 13 n 13 G 13 B G 14 n 14 G 14 B A 15 n 15 A 15 B A 16 n 16 A 16 B A 17 n 17 A 17 B A 18 n 18 A 18 B G 19 n 19 G 19 B U 20 n 20 U 20 B C 21 n 21 C 21 B G 22 n 22 G 22 B C 23 n 23 C 23 B n 1 1 C U 2 n 2 U 2 C G 3 n 3 G 3 C C 4 n 4 C 4 C G 5 n 5 G 5 C U 6 n 6 U 6 C C 7 n 7 C 7 C G 8 n 8 G 8 C U 9 n 9 U 9 C U 10 n 10 U 10 C C 11 n 11 C 11 C C 12 n 12 C 12 C G 13 n 13 G 13 C G 14 n 14 G 14 C A 15 n 15 A 15 C A 16 n 16 A 16 C A 17 n 17 A 17 C A 18 n 18 A 18 C G 19 n 19 G 19 C U 20 n 20 U 20 C C 21 n 21 C 21 C G 22 n 22 G 22 C C 23 n 23 C 23 C author_and_software_defined_assembly PISA 2 dimeric 5040 -63 8260 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 U 1 A U 1 1 Y 1 C U 1 B U 1 1 Y 0.0000 0.0000 0.0000 0.0000 0.0000 0.0000 0.2644 0.2258 0.2277 1.415 19.510 1190 22089 23271 5.11 94.51 0.19 RANDOM 1 2.00 MOLECULAR REPLACEMENT 21.40 0.90 1.11 pdb entry 2G5K ML FLAT BULK SOLVENT MODEL 80.000 0.600 1.415 19.510 209 1295 148 938 0 0.006 1208 0.976 1872 15.785 638 0.051 288 0.009 44 0.2827 0.2456 1.4795 165 2826 98.00 0.2323 0.2222 1.5574 167 2929 100.00 0.2402 0.2165 1.6549 144 2921 100.00 0.2234 0.2077 1.7826 157 2908 100.00 0.2291 0.2114 1.9619 137 2941 100.00 0.2239 0.2052 2.2454 167 2904 100.00 0.2846 0.2219 2.8276 159 2912 99.00 0.3155 0.2566 19.5116 94 1740 60.00 1.4 35.8 4K31 67545 23325 21.5 21.5 0.048 1 14.1 2.9 94.5 0.137 1.42 1.49 5.7 1 98 refinement PHENIX (phenix.refine: 1.6.1_357) Crystal structure of apramycin bound to the leishmanial rRNA A-site 1 N N 1 N N 2 N N 2 N N 2 N N 2 N N 3 N N 3 N N hydrog WATSON-CRICK B G 3 A N1 G 3 1_555 C C 23 B N3 C 23 1_555 hydrog WATSON-CRICK B G 3 A N2 G 3 1_555 C C 23 B O2 C 23 1_555 hydrog WATSON-CRICK B G 3 A O6 G 3 1_555 C C 23 B N4 C 23 1_555 hydrog WATSON-CRICK B C 4 A N3 C 4 1_555 C G 22 B N1 G 22 1_555 hydrog WATSON-CRICK B C 4 A N4 C 4 1_555 C G 22 B O6 G 22 1_555 hydrog WATSON-CRICK B C 4 A O2 C 4 1_555 C G 22 B N2 G 22 1_555 hydrog WATSON-CRICK B G 5 A N1 G 5 1_555 C C 21 B N3 C 21 1_555 hydrog WATSON-CRICK B G 5 A N2 G 5 1_555 C C 21 B O2 C 21 1_555 hydrog WATSON-CRICK B G 5 A O6 G 5 1_555 C C 21 B N4 C 21 1_555 hydrog TYPE_16_PAIR B U 6 A N3 U 6 1_555 C U 20 B O4 U 20 1_555 hydrog TYPE_16_PAIR B U 6 A O2 U 6 1_555 C U 20 B N3 U 20 1_555 hydrog WATSON-CRICK B C 7 A N3 C 7 1_555 C G 19 B N1 G 19 1_555 hydrog WATSON-CRICK B C 7 A N4 C 7 1_555 C G 19 B O6 G 19 1_555 hydrog WATSON-CRICK B C 7 A O2 C 7 1_555 C G 19 B N2 G 19 1_555 hydrog TYPE_8_PAIR B G 8 A N1 G 8 1_555 C A 17 B N1 A 17 1_555 hydrog TYPE_8_PAIR B G 8 A O6 G 8 1_555 C A 17 B N6 A 17 1_555 hydrog WATSON-CRICK B U 9 A N3 U 9 1_555 C A 16 B N1 A 16 1_555 hydrog WATSON-CRICK B U 9 A O4 U 9 1_555 C A 16 B N6 A 16 1_555 hydrog WATSON-CRICK B U 10 A N3 U 10 1_555 C A 15 B N1 A 15 1_555 hydrog WATSON-CRICK B U 10 A O4 U 10 1_555 C A 15 B N6 A 15 1_555 hydrog WATSON-CRICK B C 11 A N3 C 11 1_555 C G 14 B N1 G 14 1_555 hydrog WATSON-CRICK B C 11 A N4 C 11 1_555 C G 14 B O6 G 14 1_555 hydrog WATSON-CRICK B C 11 A O2 C 11 1_555 C G 14 B N2 G 14 1_555 hydrog WATSON-CRICK B C 12 A N3 C 12 1_555 C G 13 B N1 G 13 1_555 hydrog WATSON-CRICK B C 12 A N4 C 12 1_555 C G 13 B O6 G 13 1_555 hydrog WATSON-CRICK B C 12 A O2 C 12 1_555 C G 13 B N2 G 13 1_555 hydrog WATSON-CRICK B G 13 A N1 G 13 1_555 C C 12 B N3 C 12 1_555 hydrog WATSON-CRICK B G 13 A N2 G 13 1_555 C C 12 B O2 C 12 1_555 hydrog WATSON-CRICK B G 13 A O6 G 13 1_555 C C 12 B N4 C 12 1_555 hydrog WATSON-CRICK B G 14 A N1 G 14 1_555 C C 11 B N3 C 11 1_555 hydrog WATSON-CRICK B G 14 A N2 G 14 1_555 C C 11 B O2 C 11 1_555 hydrog WATSON-CRICK B G 14 A O6 G 14 1_555 C C 11 B N4 C 11 1_555 hydrog WATSON-CRICK B A 15 A N1 A 15 1_555 C U 10 B N3 U 10 1_555 hydrog WATSON-CRICK B A 15 A N6 A 15 1_555 C U 10 B O4 U 10 1_555 hydrog WATSON-CRICK B A 16 A N1 A 16 1_555 C U 9 B N3 U 9 1_555 hydrog WATSON-CRICK B A 16 A N6 A 16 1_555 C U 9 B O4 U 9 1_555 hydrog TYPE_8_PAIR B A 17 A N1 A 17 1_555 C G 8 B N1 G 8 1_555 hydrog TYPE_8_PAIR B A 17 A N6 A 17 1_555 C G 8 B O6 G 8 1_555 hydrog WATSON-CRICK B G 19 A N1 G 19 1_555 C C 7 B N3 C 7 1_555 hydrog WATSON-CRICK B G 19 A N2 G 19 1_555 C C 7 B O2 C 7 1_555 hydrog WATSON-CRICK B G 19 A O6 G 19 1_555 C C 7 B N4 C 7 1_555 hydrog TYPE_16_PAIR B U 20 A N3 U 20 1_555 C U 6 B O2 U 6 1_555 hydrog TYPE_16_PAIR B U 20 A O4 U 20 1_555 C U 6 B N3 U 6 1_555 hydrog WATSON-CRICK B C 21 A N3 C 21 1_555 C G 5 B N1 G 5 1_555 hydrog WATSON-CRICK B C 21 A N4 C 21 1_555 C G 5 B O6 G 5 1_555 hydrog WATSON-CRICK B C 21 A O2 C 21 1_555 C G 5 B N2 G 5 1_555 hydrog WATSON-CRICK B G 22 A N1 G 22 1_555 C C 4 B N3 C 4 1_555 hydrog WATSON-CRICK B G 22 A N2 G 22 1_555 C C 4 B O2 C 4 1_555 hydrog WATSON-CRICK B G 22 A O6 G 22 1_555 C C 4 B N4 C 4 1_555 hydrog WATSON-CRICK B C 23 A N3 C 23 1_555 C G 3 B N1 G 3 1_555 hydrog WATSON-CRICK B C 23 A N4 C 23 1_555 C G 3 B O6 G 3 1_555 hydrog WATSON-CRICK B C 23 A O2 C 23 1_555 C G 3 B N2 G 3 1_555 RNA/antibiotic rRNA duplex, Ribosomal A-site, Aminoglycoside, Ribosome, RNA, RNA-antibiotic complex 4K31 PDB 1 4K31 1 23 4K31 1 23 4K31 B 1 1 23 1 23 4K31 1 23 4K31 C 1 1 23 BINDING SITE FOR RESIDUE AM2 B 101 B AM2 101 Software 13 BINDING SITE FOR RESIDUE AM2 B 102 B AM2 102 Software 24 BINDING SITE FOR RESIDUE AM2 C 101 C AM2 101 Software 23 BINDING SITE FOR RESIDUE AM2 C 102 C AM2 102 Software 17 B C 4 A C 4 13 1_555 B G 5 A G 5 13 1_555 B U 6 A U 6 13 1_555 B G 8 A G 8 13 1_555 B HOH 207 G HOH 13 1_555 B HOH 211 G HOH 13 1_555 B HOH 239 G HOH 13 1_555 B HOH 258 G HOH 13 1_555 B HOH 295 G HOH 13 1_555 C A 17 B A 17 13 1_555 C G 19 B G 19 13 1_555 C U 20 B U 20 13 1_555 C HOH 219 H HOH 13 1_555 B U 9 A U 9 24 1_555 B U 10 A U 10 24 1_555 B C 11 A C 11 24 1_555 B HOH 205 G HOH 24 1_555 B HOH 225 G HOH 24 1_555 B HOH 232 G HOH 24 1_555 B HOH 233 G HOH 24 1_555 B HOH 235 G HOH 24 1_555 B HOH 240 G HOH 24 1_555 B HOH 253 G HOH 24 1_555 B HOH 260 G HOH 24 1_555 B HOH 274 G HOH 24 1_555 B HOH 287 G HOH 24 1_555 B HOH 297 G HOH 24 1_555 B HOH 301 G HOH 24 1_555 B HOH 308 G HOH 24 1_555 C G 8 B G 8 24 1_555 C U 9 B U 9 24 1_555 C C 23 B C 23 24 2_545 C HOH 201 H HOH 24 1_555 C HOH 210 H HOH 24 1_555 C HOH 215 H HOH 24 1_555 C HOH 274 H HOH 24 1_555 C HOH 280 H HOH 24 1_555 B G 8 A G 8 23 1_555 B U 9 A U 9 23 1_555 B C 23 A C 23 23 3_544 B HOH 210 G HOH 23 1_555 B HOH 294 G HOH 23 1_555 B HOH 308 G HOH 23 1_555 C U 9 B U 9 23 1_555 C U 10 B U 10 23 1_555 C C 11 B C 11 23 1_555 C HOH 202 H HOH 23 1_555 C HOH 204 H HOH 23 1_555 C HOH 205 H HOH 23 1_555 C HOH 225 H HOH 23 1_555 C HOH 236 H HOH 23 1_555 C HOH 238 H HOH 23 1_555 C HOH 240 H HOH 23 1_555 C HOH 257 H HOH 23 1_555 C HOH 262 H HOH 23 1_555 C HOH 269 H HOH 23 1_555 C HOH 270 H HOH 23 1_555 C HOH 275 H HOH 23 1_555 C HOH 283 H HOH 23 1_555 C HOH 295 H HOH 23 1_555 B G 14 A G 14 17 1_555 B A 17 A A 17 17 1_555 B G 19 A G 19 17 1_555 B U 20 A U 20 17 1_555 B HOH 218 G HOH 17 1_555 B HOH 227 G HOH 17 1_555 C C 4 B C 4 17 1_555 C G 5 B G 5 17 1_555 C U 6 B U 6 17 1_555 C G 8 B G 8 17 1_555 C HOH 216 H HOH 17 1_555 C HOH 239 H HOH 17 1_555 C HOH 247 H HOH 17 1_555 C HOH 278 H HOH 17 1_555 C HOH 282 H HOH 17 1_555 C HOH 284 H HOH 17 1_555 C HOH 296 H HOH 17 1_555 144 P 31