0.010679 0.006166 0.000000 0.000000 0.012331 0.000000 0.000000 0.000000 0.007484 0.00000 0.00000 0.00000 Salter, J.D. Wedekind, J.E. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 12 90.00 90.00 120.00 93.640 93.640 133.610 C10 H14 N5 O7 P 347.221 y ADENOSINE-5'-MONOPHOSPHATE RNA linking C11 H16 N5 O7 P 361.248 n 2'-O-methyladenosine 5'-(dihydrogen phosphate) RNA linking 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 Mg 2 24.305 MAGNESIUM ION non-polymer C6 H15 O7 P 230.153 2-[2-(2-HYDROXYETHOXY)ETHOXY]ETHYL DIHYDROGEN PHOSPHATE non-polymer O4 S -2 96.063 SULFATE ION non-polymer C9 H13 N2 O9 P 324.181 y URIDINE-5'-MONOPHOSPHATE RNA linking N 1 N O N 2 N P N 3 N O N 4 N O N 5 N O N 6 N C N 7 R C N 8 N O N 9 S C N 10 N O N 11 R C N 12 N O N 13 R C Y 14 N N Y 15 N C Y 16 N N Y 17 N C Y 18 N C N 19 N N Y 20 N N Y 21 N C Y 22 N N Y 23 N C N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N H N 35 N H N 36 N H N 37 N H N 38 N 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 R C N 46 N O N 47 R C N 48 N O N 49 R C N 50 N C Y 51 N N Y 52 N C Y 53 N N Y 54 N C Y 55 N C N 56 N N Y 57 N N Y 58 N C Y 59 N N Y 60 N C N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N H N 73 N H N 74 N H N 75 N H N 76 N O N 77 N H N 78 N O N 79 N P N 80 N O N 81 N O N 82 N O N 83 N C N 84 R C N 85 N O N 86 S C N 87 N O N 88 R C N 89 N O N 90 R C N 91 N N N 92 N C N 93 N O N 94 N N N 95 N C N 96 N N N 97 N C N 98 N C 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 O N 114 N P N 115 N O N 116 N O N 117 N O N 118 N C N 119 R C N 120 N O N 121 S C N 122 N O N 123 R C N 124 N O N 125 R C Y 126 N N Y 127 N C Y 128 N N Y 129 N C N 130 N C N 131 N O N 132 N N N 133 N C N 134 N N N 135 N N Y 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 H N 153 N H N 154 N MG N 155 N O N 156 N P N 157 N O N 158 N O N 159 N O N 160 N C N 161 N C N 162 N O N 163 N C N 164 N C N 165 N O N 166 N C N 167 N C N 168 N O N 169 N H N 170 N H N 171 N H N 172 N H N 173 N H N 174 N H N 175 N H N 176 N H N 177 N H N 178 N H N 179 N H N 180 N H N 181 N H N 182 N H N 183 N H N 184 N S N 185 N O N 186 N O N 187 N O N 188 N O N 189 N O N 190 N P N 191 N O N 192 N O N 193 N O N 194 N C N 195 R C N 196 N O N 197 S C N 198 N O N 199 R C N 200 N O N 201 R C N 202 N N N 203 N C N 204 N O N 205 N N N 206 N C N 207 N O N 208 N C N 209 N C N 210 N H N 211 N H N 212 N H N 213 N H N 214 N H N 215 N H N 216 N H N 217 N H N 218 N H N 219 N H N 220 N H N 221 N H N 222 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 doub 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 Y 65 N sing Y 66 N sing Y 67 N doub N 68 N sing Y 69 N sing Y 70 N sing Y 71 N doub N 72 N sing Y 73 N doub N 74 N sing N 75 N sing Y 76 N sing Y 77 N doub N 78 N sing Y 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N doub 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 doub 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 doub N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N doub N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing N 138 N sing N 139 N sing N 140 N sing N 141 N sing Y 142 N sing Y 143 N sing Y 144 N doub N 145 N sing Y 146 N sing N 147 N sing Y 148 N doub 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 sing N 160 N sing N 161 N sing N 162 N doub 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 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 doub N 189 N doub N 190 N sing N 191 N sing N 192 N sing N 193 N sing N 194 N doub N 195 N sing N 196 N sing N 197 N sing N 198 N sing N 199 N sing N 200 N sing N 201 N sing N 202 N sing N 203 N sing N 204 N sing N 205 N sing N 206 N sing N 207 N sing N 208 N sing N 209 N sing N 210 N sing 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 doub N 223 N sing N 224 N doub N 225 N sing N 226 N sing UK Rna RNARFU 2122 1355-8382 14 1600 1616 10.1261/rna.1055308 18596253 Structural effects of nucleobase variations at key active site residue Ade38 in the hairpin ribozyme. 2008 10.2210/pdb3cr1/pdb pdb_00003cr1 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 95 1 CCD 2007-06-20 ADSC QUANTUM 210 bent triangular asymmetric cut si(111) monochromator, RH-coated si for vertical focusing SINGLE WAVELENGTH M x-ray 1 0.977 1.0 A1 CHESS 0.977 SYNCHROTRON CHESS BEAMLINE A1 13-mer substrate strand 4066.497 RNA (5'-R(*UP*CP*CP*CP*(A2M)P*GP*UP*CP*CP*AP*CP*CP*G)-3') 1 syn polymer 9762.989 loop A and B ribozyme strand 1 syn polymer loop B ribozyme strand 5967.544 RNA (5'-R(*UP*CP*GP*UP*GP*GP*UP*CP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3') 1 syn polymer 96.063 SULFATE ION 1 syn non-polymer 24.305 MAGNESIUM ION 1 syn non-polymer 18.015 water 33 nat water no yes UCCC(A2M)GUCCACCG UCCCAGUCCACCG A polyribonucleotide no yes CGGUGAGAAGGG(S9L)GGCAGAGAAACACACGA CGGUGAGAAGGGXGGCAGAGAAACACACGA B polydeoxyribonucleotide/polyribonucleotide hybrid no no UCGUGGUCCAUUACCUGCC UCGUGGUCCAUUACCUGCC 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 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 4.27 71.20 VAPOR DIFFUSION, HANGING DROP 6.0 PEG2000 MME, lithium sulfate, magnesium chloride, spermidine, sodium cacodylate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K 293 PEG2000 MME 1 lithium sulfate 1 magnesium chloride 1 spermidine 1 sodium cacodylate 1 PEG2000 MME 2 lithium sulfate 2 magnesium chloride 2 spermidine 2 sodium cacodylate 2 8.358 1 19 A 2 B 13 1.976 A_C2:G13_B 1 -18.239 0.104 -0.344 -0.157 -4.133 1 19 A 3 B 12 1.693 A_C3:G12_B 2 -7.298 0.151 -0.061 -0.155 4.103 1 19 A 4 B 11 3.214 A_C4:G11_B 3 2.990 0.434 -0.017 -0.145 9.993 A 5 B 9 -31.264 A_A2M5:A9_B 4 -3.298 6.766 -0.868 -3.722 8.590 A 7 B 8 -3.769 A_U7:G8_B 5 9.307 -8.010 0.109 -2.937 24.474 A 8 B 7 8.701 A_C8:A7_B 6 -16.251 -1.976 -1.176 0.466 10.219 1 19 A 9 B 6 5.079 A_C9:G6_B 7 -13.424 -0.133 -0.252 -0.062 3.328 1 20 A 10 B 5 1.154 A_A10:U5_B 8 -12.360 0.826 0.552 -0.121 3.632 1 19 A 11 B 4 3.391 A_C11:G4_B 9 -13.511 0.462 0.329 -0.055 0.688 1 19 A 12 B 3 3.599 A_C12:G3_B 10 -13.716 0.108 0.364 -0.332 -1.454 1 19 A 13 B 2 5.749 A_G13:C2_B 11 -9.966 -0.152 0.071 0.009 -0.998 1 19 B 15 C 49 0.458 B_G15:C49_C 12 -10.755 -0.314 0.320 -0.142 8.786 1 19 B 16 C 48 -1.212 B_G16:C48_C 13 -13.183 -0.141 0.350 -0.237 6.041 1 19 B 17 C 47 -0.722 B_C17:G47_C 14 -11.349 0.027 0.023 -0.142 -6.933 1 20 B 18 C 46 7.446 B_A18:U46_C 15 -13.730 -0.264 -0.251 -0.007 -10.722 1 19 B 19 C 45 7.566 B_G19:C45_C 16 -10.410 -0.373 -0.422 -0.152 -13.591 1 B 20 C 44 10.763 B_A20:C44_C 17 -6.518 2.257 -0.648 0.165 -4.596 10 11 B 21 C 43 -7.697 B_G21:A43_C 18 0.744 6.973 -0.176 -4.471 -7.942 4 24 B 22 C 41 -101.647 B_A22:U41_C 19 -11.475 -4.012 -0.227 -1.797 -3.111 4 5 B 23 C 40 -96.176 B_A23:A40_C 20 -23.382 -4.204 -0.768 0.951 8.675 2 B 24 C 38 122.052 B_A24:C38_C 21 11.403 -1.318 0.225 0.093 18.830 1 19 B 25 A 6 2.446 B_C25:G6_A 22 -11.294 0.179 -0.157 -0.114 -9.779 8 B 26 C 36 -19.308 B_A26:G36_C 23 -21.051 0.305 -0.431 1.319 6.705 1 19 B 27 C 35 2.181 B_C27:G35_C 24 -22.876 0.075 0.023 -0.178 2.006 1 20 B 28 C 34 -0.420 B_A28:U34_C 25 -22.307 0.108 0.178 -0.226 8.110 1 19 B 29 C 33 2.518 B_C29:G33_C 26 -14.528 0.030 -0.066 -0.105 -10.991 1 19 B 30 C 32 -0.646 B_G30:C32_C 27 -16.737 -0.363 -0.053 -0.102 -3.465 1 20 B 31 C 31 0.792 B_A31:U31_C 28 -11.953 0.405 -0.007 -0.072 2.718 34.858 A A 2 3 21.779 B B 13 12 3.573 12.753 -0.542 -1.815 AA_C2C3:G12G13_BB 1 -2.167 3.700 32.438 -4.965 0.577 2.738 29.399 A A 3 4 15.847 B B 12 11 3.233 7.945 0.296 -1.470 AA_C3C4:G11G12_BB 2 1.127 -2.247 28.306 -4.482 -0.358 5.022 80.951 A A 4 5 17.977 B B 11 9 5.399 23.114 -0.119 -0.923 AA_C4A2M5:A9G11_BB 3 -0.721 0.561 78.129 -1.687 0.061 0.582 10.936 A A 5 7 26.312 B B 9 8 3.437 3.561 -0.038 -0.051 AA_A2M5U7:G8A9_BB 4 10.143 -74.949 2.011 -6.063 16.713 2.744 54.408 A A 7 8 13.017 B B 8 7 2.924 11.821 0.153 -0.599 AA_U7C8:A7G8_BB 5 0.107 -0.118 53.204 -1.286 -0.162 3.454 39.420 A A 8 9 13.373 B B 7 6 3.872 8.915 -0.048 -1.328 AA_C8C9:G6A7_BB 6 -5.972 8.957 37.987 -3.173 -0.735 2.743 38.599 A A 9 10 15.261 B B 6 5 3.260 9.951 -0.299 -1.707 AA_C9A10:U5G6_BB 7 -5.331 8.175 36.972 -3.735 -0.165 2.968 29.083 A A 10 11 8.107 B B 5 4 3.209 4.054 -0.115 -1.417 AA_A10C11:G4U5_BB 8 2.171 -4.340 28.724 -3.667 0.681 2.542 30.608 A A 11 12 13.794 B B 4 3 3.132 7.216 0.085 -2.197 AA_C11C12:G3G4_BB 9 0.249 -0.477 29.764 -5.417 -0.118 2.492 33.067 A A 12 13 16.149 B B 3 2 3.073 9.066 0.126 -1.748 AA_C12G13:C2G3_BB 10 3.164 -5.635 31.680 -4.404 0.243 2.778 34.537 B B 15 16 11.437 C C 49 48 2.985 6.741 -0.758 -1.074 BB_G15G16:C48C49_CC 11 -2.854 4.842 33.775 -2.739 0.883 2.845 35.894 B B 16 17 15.000 C C 48 47 3.284 9.148 0.363 -1.402 BB_G16C17:G47C48_CC 12 0.949 -1.556 34.733 -3.524 -0.460 2.719 33.584 B B 17 18 21.678 C C 47 46 3.491 12.244 0.583 -1.611 BB_C17A18:U46G47_CC 13 2.063 -3.653 31.266 -4.765 -0.676 2.753 29.994 B B 18 19 16.705 C C 46 45 3.410 8.531 0.213 -1.877 BB_A18G19:C45U46_CC 14 0.071 -0.140 28.781 -5.319 -0.397 3.288 37.815 B B 19 20 9.378 C C 45 44 3.516 6.047 0.580 -1.429 BB_G19A20:C44C45_CC 15 3.058 -4.742 37.225 -3.021 -0.482 2.925 57.923 B B 20 21 6.662 C C 44 43 3.086 6.436 -0.347 -1.129 BB_A20G21:A43C44_CC 16 4.201 -4.348 57.455 -1.482 0.565 3.115 16.187 B B 21 22 -1.575 C C 43 41 3.522 -0.441 -2.206 -0.652 BB_G21A22:U41A43_CC 17 2.756 -9.835 15.946 -1.993 9.841 3.025 46.442 B B 22 23 10.103 C C 41 40 3.541 7.877 0.036 -2.415 BB_A22A23:A40U41_CC 18 -9.851 12.634 44.788 -3.744 -0.897 2.507 -69.040 B B 23 24 9.233 C C 40 38 2.920 -10.433 -0.168 -2.931 BB_A23A24:C38A40_CC 19 1.258 1.113 -68.334 2.906 -0.110 3.475 49.694 B B 25 26 11.144 A C 6 36 3.863 9.309 0.168 -1.874 BB_C25A26:G36G6_CA 20 3.765 -4.507 48.732 -3.005 0.113 2.720 29.398 B B 26 27 3.651 C C 36 35 2.928 1.847 1.202 -0.561 BB_A26C27:G35G36_CC 21 -3.650 7.215 29.118 -1.449 -3.047 2.715 37.255 B B 27 28 19.754 C C 35 34 3.267 12.393 -0.036 -1.172 BB_C27A28:U34G35_CC 22 -1.184 1.888 35.183 -3.385 -0.092 3.217 31.876 B B 28 29 -2.500 C C 34 33 3.146 -1.371 0.525 -0.992 BB_A28C29:G33U34_CC 23 2.643 -4.820 31.740 -1.562 -0.487 2.862 38.133 B B 29 30 22.288 C C 33 32 3.618 14.226 0.175 -1.429 BB_C29G30:C32G33_CC 24 2.272 -3.560 35.402 -4.042 0.028 2.841 34.292 B B 30 31 8.149 C C 32 31 3.027 4.784 0.725 -1.544 BB_G30A31:U31C32_CC 25 3.033 -5.167 33.835 -3.297 -0.800 chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_struct_special_symmetry struct_conn struct_ref_seq struct_site repository Initial release Non-polymer description Version format compliance Data collection Database references Derived calculations Refinement description 1 0 2008-08-26 1 1 2011-07-13 1 2 2023-08-30 _database_2.pdbx_DOI _database_2.pdbx_database_accession _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_ref_seq.db_align_beg _struct_ref_seq.db_align_end _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id DAP38, A-1 2'Omethyl mutant hairpin ribozyme DAP38, A-1/G+1 2'-5' linkage mutant hairpin ribozyme AP38, A-1 2'Omethyl mutant hairpin ribozyme AP38, A-1/G+1 2'-5' linkage mutant hairpin ribozyme C38, A-1 2'Omethyl mutant hairpin ribozyme C38, A-1/G+1 2'-5' linkage mutant hairpin ribozyme RCSB Y RCSB 2008-04-04 REL REL SO4 SULFATE ION MG MAGNESIUM ION HOH water 2OUE PDB experimental model SO4 1 4 SO4 SO4 14 A MG 1 5 MG MG 1 B HOH 2 6 HOH HOH 15 A HOH 10 6 HOH HOH 16 A HOH 13 6 HOH HOH 17 A HOH 14 6 HOH HOH 18 A HOH 16 6 HOH HOH 19 A HOH 20 6 HOH HOH 20 A HOH 27 6 HOH HOH 21 A HOH 31 6 HOH HOH 22 A HOH 3 6 HOH HOH 32 B HOH 5 6 HOH HOH 33 B HOH 7 6 HOH HOH 34 B HOH 11 6 HOH HOH 35 B HOH 12 6 HOH HOH 36 B HOH 15 6 HOH HOH 37 B HOH 17 6 HOH HOH 38 B HOH 18 6 HOH HOH 39 B HOH 21 6 HOH HOH 40 B HOH 22 6 HOH HOH 41 B HOH 23 6 HOH HOH 42 B HOH 25 6 HOH HOH 43 B HOH 28 6 HOH HOH 44 B HOH 30 6 HOH HOH 45 B HOH 33 6 HOH HOH 46 B HOH 1 6 HOH HOH 50 C HOH 4 6 HOH HOH 51 C HOH 6 6 HOH HOH 52 C HOH 8 6 HOH HOH 53 C HOH 9 6 HOH HOH 54 C HOH 19 6 HOH HOH 55 C HOH 24 6 HOH HOH 56 C HOH 26 6 HOH HOH 57 C HOH 29 6 HOH HOH 58 C HOH 32 6 HOH HOH 59 C U 1 n 1 U 1 A C 2 n 2 C 2 A C 3 n 3 C 3 A C 4 n 4 C 4 A A2M 5 n 5 A2M 5 A G 6 n 6 G 6 A U 7 n 7 U 7 A C 8 n 8 C 8 A C 9 n 9 C 9 A A 10 n 10 A 10 A C 11 n 11 C 11 A C 12 n 12 C 12 A G 13 n 13 G 13 A C 2 n 1 C 2 B G 3 n 2 G 3 B G 4 n 3 G 4 B U 5 n 4 U 5 B G 6 n 5 G 6 B A 7 n 6 A 7 B G 8 n 7 G 8 B A 9 n 8 A 9 B A 10 n 9 A 10 B G 11 n 10 G 11 B G 12 n 11 G 12 B G 13 n 12 G 13 B S9L 14 n 13 S9L 14 B G 15 n 14 G 15 B G 16 n 15 G 16 B C 17 n 16 C 17 B A 18 n 17 A 18 B G 19 n 18 G 19 B A 20 n 19 A 20 B G 21 n 20 G 21 B A 22 n 21 A 22 B A 23 n 22 A 23 B A 24 n 23 A 24 B C 25 n 24 C 25 B A 26 n 25 A 26 B C 27 n 26 C 27 B A 28 n 27 A 28 B C 29 n 28 C 29 B G 30 n 29 G 30 B A 31 n 30 A 31 B U 31 n 1 U 31 C C 32 n 2 C 32 C G 33 n 3 G 33 C U 34 n 4 U 34 C G 35 n 5 G 35 C G 36 n 6 G 36 C U 37 n 7 U 37 C C 38 n 8 C 38 C C 39 n 9 C 39 C A 40 n 10 A 40 C U 41 n 11 U 41 C U 42 n 12 U 42 C A 43 n 13 A 43 C C 44 n 14 C 44 C C 45 n 15 C 45 C U 46 n 16 U 46 C G 47 n 17 G 47 C C 48 n 18 C 48 C C 49 n 19 C 49 C author_and_software_defined_assembly PISA 3 trimeric 5590 -25 9380 A A2M 5 2'-O-METHYL-ADENOSINE-5'-MONOPHOSPHATE A A2M 5 A 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 A U 1 A U 1 1 -6.89 1.10 112.00 105.11 A A A N1 C1' C2' U U U 1 1 1 A A A N 1 4.84 0.70 119.40 124.24 A A A N3 C4 O4 U U U 1 1 1 A A A N 1 -5.85 0.60 125.90 120.05 A A A C5 C4 O4 U U U 1 1 1 A A A N 1 10.45 1.30 114.00 124.45 A A A N9 C1' C2' G G G 6 6 6 N 1 -8.67 1.40 115.20 106.53 B B B C5' C4' C3' G G G 8 8 8 N dna-rna0107.par dna-rna0107.top water.top ion.param ion.top water_rep.param 68.1 -7.35 -4.64 0.00 -7.35 0.00 14.69 Bulk solvent model used 0.246 0.007 0.219 0.221 2.25 30.89 1314 16725 7.9 98.0 RANDOM 941903.55 0.000000 1 RESTRAINED THROUGHOUT 0.0 -3.0 FOURIER SYNTHESIS 2OUE Parkinson et al. Acta Cryst. D, 52, 57-64 (1996) FLAT MODEL 52.9068 0.335642 0.46 0.42 5.00 0.60 0.58 2.25 30.89 33 1348 6 1309 0 0.009 1.6 16.6 2.22 0.435 0.030 0.414 2.39 215 2538 6 7.8 99.6 47.4 2.25 30.89 3CR1 16729 0 -3 0.04 1 25.8 11.3 98.2 0.541 2.25 2.33 4.4 1 11.01 99.7 refinement CNS 1.1 data collection CrystalClear data reduction CrystalClear data scaling CrystalClear phasing CNS crystal structure of a minimal, mutant, all-RNA hairpin ribozyme (A38C, A-1OMA) grown from MgCl2 1 N N 2 N N 3 N N 4 N N 5 N N 6 N N 6 N N 6 N N covale 1.603 both A C 4 A O3' C 4 1_555 A A2M 5 A P A2M 5 1_555 covale 1.593 one A A2M 5 A O3' A2M 5 1_555 A G 6 A P G 6 1_555 covale 1.627 both B G 13 B O3' G 12 1_555 B S9L 14 B P S9L 13 1_555 covale 1.610 both B S9L 14 B O3' S9L 13 1_555 B G 15 B P G 14 1_555 metalc 2.405 B MG 1 E MG MG 1_555 B G 21 B N7 G 20 1_555 hydrog WATSON-CRICK A C 2 A N3 C 2 1_555 B G 13 B N1 G 12 1_555 hydrog WATSON-CRICK A C 2 A N4 C 2 1_555 B G 13 B O6 G 12 1_555 hydrog WATSON-CRICK A C 2 A O2 C 2 1_555 B G 13 B N2 G 12 1_555 hydrog WATSON-CRICK A C 3 A N3 C 3 1_555 B G 12 B N1 G 11 1_555 hydrog WATSON-CRICK A C 3 A N4 C 3 1_555 B G 12 B O6 G 11 1_555 hydrog WATSON-CRICK A C 3 A O2 C 3 1_555 B G 12 B N2 G 11 1_555 hydrog WATSON-CRICK A C 4 A N3 C 4 1_555 B G 11 B N1 G 10 1_555 hydrog WATSON-CRICK A C 4 A N4 C 4 1_555 B G 11 B O6 G 10 1_555 hydrog WATSON-CRICK A C 4 A O2 C 4 1_555 B G 11 B N2 G 10 1_555 hydrog A2M-A MISPAIR A A2M 5 A N3 A2M 5 1_555 B A 9 B N6 A 8 1_555 hydrog A2M-A MISPAIR A A2M 5 A N3 A2M 5 1_555 B A 10 B N6 A 9 1_555 hydrog WATSON-CRICK A G 6 A N1 G 6 1_555 B C 25 B N3 C 24 1_555 hydrog WATSON-CRICK A G 6 A N2 G 6 1_555 B C 25 B O2 C 24 1_555 hydrog WATSON-CRICK A G 6 A O6 G 6 1_555 B C 25 B N4 C 24 1_555 hydrog U-G MISPAIR A U 7 A O4 U 7 1_555 B G 8 B N2 G 7 1_555 hydrog C-A MISPAIR A C 8 A N4 C 8 1_555 B A 7 B N1 A 6 1_555 hydrog WATSON-CRICK A C 9 A N3 C 9 1_555 B G 6 B N1 G 5 1_555 hydrog WATSON-CRICK A C 9 A N4 C 9 1_555 B G 6 B O6 G 5 1_555 hydrog WATSON-CRICK A C 9 A O2 C 9 1_555 B G 6 B N2 G 5 1_555 hydrog WATSON-CRICK A A 10 A N1 A 10 1_555 B U 5 B N3 U 4 1_555 hydrog WATSON-CRICK A A 10 A N6 A 10 1_555 B U 5 B O4 U 4 1_555 hydrog WATSON-CRICK A C 11 A N3 C 11 1_555 B G 4 B N1 G 3 1_555 hydrog WATSON-CRICK A C 11 A N4 C 11 1_555 B G 4 B O6 G 3 1_555 hydrog WATSON-CRICK A C 11 A O2 C 11 1_555 B G 4 B N2 G 3 1_555 hydrog WATSON-CRICK A C 12 A N3 C 12 1_555 B G 3 B N1 G 2 1_555 hydrog WATSON-CRICK A C 12 A N4 C 12 1_555 B G 3 B O6 G 2 1_555 hydrog WATSON-CRICK A C 12 A O2 C 12 1_555 B G 3 B N2 G 2 1_555 hydrog WATSON-CRICK A G 13 A N1 G 13 1_555 B C 2 B N3 C 1 1_555 hydrog WATSON-CRICK A G 13 A N2 G 13 1_555 B C 2 B O2 C 1 1_555 hydrog WATSON-CRICK A G 13 A O6 G 13 1_555 B C 2 B N4 C 1 1_555 hydrog WATSON-CRICK B G 15 B N1 G 14 1_555 C C 49 C N3 C 19 1_555 hydrog WATSON-CRICK B G 15 B N2 G 14 1_555 C C 49 C O2 C 19 1_555 hydrog WATSON-CRICK B G 15 B O6 G 14 1_555 C C 49 C N4 C 19 1_555 hydrog WATSON-CRICK B G 16 B N1 G 15 1_555 C C 48 C N3 C 18 1_555 hydrog WATSON-CRICK B G 16 B N2 G 15 1_555 C C 48 C O2 C 18 1_555 hydrog WATSON-CRICK B G 16 B O6 G 15 1_555 C C 48 C N4 C 18 1_555 hydrog WATSON-CRICK B C 17 B N3 C 16 1_555 C G 47 C N1 G 17 1_555 hydrog WATSON-CRICK B C 17 B N4 C 16 1_555 C G 47 C O6 G 17 1_555 hydrog WATSON-CRICK B C 17 B O2 C 16 1_555 C G 47 C N2 G 17 1_555 hydrog WATSON-CRICK B A 18 B N1 A 17 1_555 C U 46 C N3 U 16 1_555 hydrog WATSON-CRICK B A 18 B N6 A 17 1_555 C U 46 C O4 U 16 1_555 hydrog WATSON-CRICK B G 19 B N1 G 18 1_555 C C 45 C N3 C 15 1_555 hydrog WATSON-CRICK B G 19 B N2 G 18 1_555 C C 45 C O2 C 15 1_555 hydrog WATSON-CRICK B G 19 B O6 G 18 1_555 C C 45 C N4 C 15 1_555 hydrog A-C MISPAIR B A 20 B N1 A 19 1_555 C C 44 C N4 C 14 1_555 hydrog TYPE_11_PAIR B G 21 B N2 G 20 1_555 C A 43 C N7 A 13 1_555 hydrog TYPE_11_PAIR B G 21 B N3 G 20 1_555 C A 43 C N6 A 13 1_555 hydrog REVERSED HOOGSTEEN B A 22 B N6 A 21 1_555 C U 41 C O2 U 11 1_555 hydrog REVERSED HOOGSTEEN B A 22 B N7 A 21 1_555 C U 41 C N3 U 11 1_555 hydrog TYPE_5_PAIR B A 23 B N6 A 22 1_555 C A 40 C N1 A 10 1_555 hydrog TYPE_5_PAIR B A 23 B N7 A 22 1_555 C A 40 C N6 A 10 1_555 hydrog A-C MISPAIR B A 24 B N6 A 23 1_555 C C 38 C O2 C 8 1_555 hydrog TYPE_8_PAIR B A 26 B N1 A 25 1_555 C G 36 C N1 G 6 1_555 hydrog TYPE_8_PAIR B A 26 B N6 A 25 1_555 C G 36 C O6 G 6 1_555 hydrog WATSON-CRICK B C 27 B N3 C 26 1_555 C G 35 C N1 G 5 1_555 hydrog WATSON-CRICK B C 27 B N4 C 26 1_555 C G 35 C O6 G 5 1_555 hydrog WATSON-CRICK B C 27 B O2 C 26 1_555 C G 35 C N2 G 5 1_555 hydrog WATSON-CRICK B A 28 B N1 A 27 1_555 C U 34 C N3 U 4 1_555 hydrog WATSON-CRICK B A 28 B N6 A 27 1_555 C U 34 C O4 U 4 1_555 hydrog WATSON-CRICK B C 29 B N3 C 28 1_555 C G 33 C N1 G 3 1_555 hydrog WATSON-CRICK B C 29 B N4 C 28 1_555 C G 33 C O6 G 3 1_555 hydrog WATSON-CRICK B C 29 B O2 C 28 1_555 C G 33 C N2 G 3 1_555 hydrog WATSON-CRICK B G 30 B N1 G 29 1_555 C C 32 C N3 C 2 1_555 hydrog WATSON-CRICK B G 30 B N2 G 29 1_555 C C 32 C O2 C 2 1_555 hydrog WATSON-CRICK B G 30 B O6 G 29 1_555 C C 32 C N4 C 2 1_555 hydrog WATSON-CRICK B A 31 B N1 A 30 1_555 C U 31 C N3 U 1 1_555 hydrog WATSON-CRICK B A 31 B N6 A 30 1_555 C U 31 C O4 U 1 1_555 RNA ribozyme, A38, RNA 3CR1 PDB 1 1 3CR1 UCCCAGUCCACCG 3CR1 PDB 2 1 3CR1 CGGUGAGAAGGG(S9L)GGCAGAGAAACACACGA 3CR1 PDB 3 1 3CR1 UCGUGGUCCAUUACCUGCC 1 13 3CR1 1 13 3CR1 A 1 1 13 2 31 3CR1 2 31 3CR1 B 2 1 30 31 49 3CR1 31 49 3CR1 C 3 1 19 BINDING SITE FOR RESIDUE SO4 A 14 A SO4 14 Software 1 A HOH 18 F HOH 1 1_555 178 P 61 2 2