0.029960 0.017297 0.000000 0.000000 0.034595 0.000000 0.000000 0.000000 0.010173 0.00000 0.00000 0.00000 Baikalov, I. Grzeskowiak, K. Yanagi, K. Quintana, J. Dickerson, R.E. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 12 90.00 90.00 120.00 33.378 33.378 98.302 C11 H16 N5 O6 P 345.248 n N6-METHYL-DEOXY-ADENOSINE-5'-MONOPHOSPHATE DNA linking Cl -1 35.453 CHLORIDE ION non-polymer 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 C10 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA linking H2 O 18.015 WATER 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 Y 18 N N Y 19 N C Y 20 N N Y 21 N C N 22 N N N 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 H N 39 N H N 40 N CL N 41 N O N 42 N P N 43 N O N 44 N O N 45 N O N 46 N C N 47 R C N 48 N O N 49 S C N 50 N O N 51 N C N 52 R C Y 53 N N Y 54 N C Y 55 N N Y 56 N C Y 57 N C N 58 N N Y 59 N N Y 60 N C Y 61 N N Y 62 N C 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 H N 77 N O N 78 N P N 79 N O N 80 N O N 81 N O N 82 N C N 83 R C N 84 N O N 85 S C N 86 N O N 87 N C N 88 R C N 89 N N N 90 N C N 91 N O N 92 N N N 93 N C N 94 N N N 95 N C N 96 N C N 97 N H N 98 N H N 99 N H N 100 N H N 101 N H N 102 N H N 103 N H N 104 N H N 105 N H N 106 N H N 107 N H N 108 N H N 109 N H N 110 N H N 111 N O N 112 N P N 113 N O N 114 N O N 115 N O N 116 N C N 117 R C N 118 N O N 119 S C N 120 N O N 121 N C N 122 R C Y 123 N N Y 124 N C Y 125 N N Y 126 N C N 127 N C N 128 N O N 129 N N N 130 N C N 131 N N N 132 N N Y 133 N C N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N H N 145 N H N 146 N H N 147 N H N 148 N O N 149 N P N 150 N O N 151 N O N 152 N O N 153 N C N 154 R C N 155 N O N 156 S C N 157 N O N 158 N C N 159 R C N 160 N N N 161 N C N 162 N O N 163 N N N 164 N C N 165 N O N 166 N C N 167 N C N 168 N C 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 O N 185 N H N 186 N H N 187 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 Y 31 N doub N 32 N sing Y 33 N sing Y 34 N doub N 35 N sing Y 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 doub 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 doub N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N sing N 104 N sing N 105 N doub N 106 N sing N 107 N doub N 108 N sing N 109 N sing N 110 N sing N 111 N sing N 112 N doub N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N doub N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing N 131 N sing N 132 N sing N 133 N sing N 134 N sing N 135 N sing N 136 N sing N 137 N sing Y 138 N sing Y 139 N sing Y 140 N doub N 141 N sing Y 142 N sing N 143 N sing Y 144 N doub N 145 N doub N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N doub N 151 N sing N 152 N sing N 153 N sing 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 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 doub N 180 N sing N 181 N sing N 182 N sing N 183 N doub N 184 N sing N 185 N sing N 186 N doub N 187 N sing N 188 N sing N 189 N sing N 190 N sing N 191 N sing N 192 N sing UK J.Mol.Biol. JMOBAK 0070 0022-2836 231 768 784 10.1006/jmbi.1993.1325 8515450 The crystal structure of the trigonal decamer C-G-A-T-C-G-6meA-T-C-G: a B-DNA helix with 10.6 base-pairs per turn. 1993 US J.Biol.Chem. JBCHA3 0071 0021-9258 266 8861 8883 The Structure of B-Helical C-G-A-T-C-G-A-T-C-G and Comparison with C-C-A-A-C-G- T-T-G-G. The Effect of Base Pair Reversals 1991 10.2210/pdb1da3/pdb pdb_00001da3 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 273.00 1 DIFFRACTOMETER RIGAKU AFC-5R x-ray 1 1.0 ROTATING ANODE RIGAKU 3059.031 DNA (5'-D(*CP*GP*AP*TP*CP*GP*(6MA)P*TP*CP*G)-3') 2 man polymer 35.453 CHLORIDE ION 1 syn non-polymer 24.305 MAGNESIUM ION 2 syn non-polymer 18.015 water 53 nat water no yes (DC)(DG)(DA)(DT)(DC)(DG)(6MA)(DT)(DC)(DG) CGATCGATCG A,B polydeoxyribonucleotide n n n n n n n n n n 2.58 52.39 VAPOR DIFFUSION, SITTING DROP VAPOR DIFFUSION, SITTING DROP, temperature 277.00K 277.00 WATER 1 MPD 1 MGCL2 1 WATER 2 MPD 2 2.207 1 19 A 1 B 20 1.489 A_DC1:DG20_B 1 -8.025 0.238 -0.349 -0.337 0.332 1 19 A 2 B 19 0.161 A_DG2:DC19_B 2 -9.601 -0.180 -0.068 -0.235 -1.146 1 20 A 3 B 18 1.077 A_DA3:DT18_B 3 -16.200 0.109 0.035 -0.074 1.036 1 20 A 4 B 17 -3.713 A_DT4:6MA17_B 4 -9.334 -0.186 -0.178 -0.095 2.418 1 19 A 5 B 16 -3.126 A_DC5:DG16_B 5 -8.413 0.157 -0.134 -0.089 6.688 1 19 A 6 B 15 -2.795 A_DG6:DC15_B 6 -4.805 -0.242 0.251 -0.594 0.808 1 20 A 7 B 14 -0.082 A_6MA7:DT14_B 7 -11.455 0.263 -0.019 -0.357 3.802 1 20 A 8 B 13 -4.642 A_DT8:DA13_B 8 -9.822 0.259 -0.036 -0.484 5.492 1 19 A 9 B 12 -0.837 A_DC9:DG12_B 9 -10.718 0.469 -0.158 -0.253 6.575 1 19 A 10 B 11 -2.117 A_DG10:DC11_B 10 -5.057 -0.103 0.106 -0.202 3.574 36.448 A A 1 2 6.197 B B 20 19 3.457 3.857 -0.779 0.601 AA_DC1DG2:DC19DG20_BB 1 -5.107 8.205 35.901 0.382 0.479 3.150 32.468 A A 2 3 12.213 B B 19 18 3.323 6.780 0.715 -0.611 AA_DG2DA3:DT18DC19_BB 2 1.019 -1.835 31.755 -2.283 -1.100 3.117 30.471 A A 3 4 7.983 B B 18 17 3.261 4.182 -0.765 -0.644 AA_DA3DT4:6MA17DT18_BB 3 1.065 -2.033 30.171 -2.042 1.664 3.349 36.472 A A 4 5 0.200 B B 17 16 3.350 0.125 0.359 -0.149 AA_DT4DC5:DG166MA17_BB 4 -0.116 0.185 36.472 -0.256 -0.590 3.368 33.178 A A 5 6 2.988 B B 16 15 3.286 1.704 1.096 0.546 AA_DC5DG6:DC15DG16_BB 5 1.999 -3.505 33.076 0.666 -1.577 3.430 36.263 A A 6 7 13.656 B B 15 14 3.489 8.427 -0.696 0.125 AA_DG66MA7:DT14DC15_BB 6 -0.134 0.217 35.302 -1.066 1.099 3.284 32.970 A A 7 8 -5.863 B B 14 13 3.275 -3.322 -0.008 -0.253 AA_6MA7DT8:DA13DT14_BB 7 -0.482 0.850 32.803 0.122 -0.068 3.181 35.559 A A 8 9 11.124 B B 13 12 3.263 6.744 0.228 -0.182 AA_DT8DC9:DG12DA13_BB 8 3.585 -5.914 34.755 -1.279 0.147 3.350 33.377 A A 9 10 16.113 B B 12 11 3.304 9.135 -0.402 0.548 AA_DC9DG10:DC11DG12_BB 9 -2.311 4.076 32.055 -0.619 0.301 chem_comp_atom chem_comp_bond database_2 pdbx_struct_conn_angle struct_conn struct_conn_type struct_site repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 1993-04-15 1 1 2008-05-22 1 2 2011-07-13 1 3 2024-02-07 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.value _struct_conn.conn_type_id _struct_conn.id _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_asym_id _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.ptnr1_symmetry _struct_conn.ptnr2_auth_asym_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_conn.ptnr2_symmetry _struct_conn_type.id _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id BNL Y NDB 1992-11-09 REL REL CL CHLORIDE ION MG MAGNESIUM ION HOH water CL 21 2 CL CL 21 B MG 22 3 MG MG 22 B MG 23 3 MG MG 23 B HOH 24 4 HOH HOH 24 A HOH 25 4 HOH HOH 25 A HOH 26 4 HOH HOH 26 A HOH 29 4 HOH HOH 29 A HOH 31 4 HOH HOH 31 A HOH 34 4 HOH HOH 34 A HOH 39 4 HOH HOH 39 A HOH 47 4 HOH HOH 47 A HOH 50 4 HOH HOH 50 A HOH 52 4 HOH HOH 52 A HOH 53 4 HOH HOH 53 A HOH 56 4 HOH HOH 56 A HOH 57 4 HOH HOH 57 A HOH 58 4 HOH HOH 58 A HOH 62 4 HOH HOH 62 A HOH 64 4 HOH HOH 64 A HOH 66 4 HOH HOH 66 A HOH 67 4 HOH HOH 67 A HOH 68 4 HOH HOH 68 A HOH 27 4 HOH HOH 27 B HOH 28 4 HOH HOH 28 B HOH 30 4 HOH HOH 30 B HOH 32 4 HOH HOH 32 B HOH 33 4 HOH HOH 33 B HOH 35 4 HOH HOH 35 B HOH 36 4 HOH HOH 36 B HOH 37 4 HOH HOH 37 B HOH 38 4 HOH HOH 38 B HOH 40 4 HOH HOH 40 B HOH 41 4 HOH HOH 41 B HOH 42 4 HOH HOH 42 B HOH 43 4 HOH HOH 43 B HOH 44 4 HOH HOH 44 B HOH 45 4 HOH HOH 45 B HOH 46 4 HOH HOH 46 B HOH 48 4 HOH HOH 48 B HOH 49 4 HOH HOH 49 B HOH 51 4 HOH HOH 51 B HOH 54 4 HOH HOH 54 B HOH 55 4 HOH HOH 55 B HOH 59 4 HOH HOH 59 B HOH 60 4 HOH HOH 60 B HOH 61 4 HOH HOH 61 B HOH 63 4 HOH HOH 63 B HOH 65 4 HOH HOH 65 B HOH 69 4 HOH HOH 69 B HOH 70 4 HOH HOH 70 B HOH 71 4 HOH HOH 71 B HOH 72 4 HOH HOH 72 B HOH 73 4 HOH HOH 73 B HOH 74 4 HOH HOH 74 B HOH 75 4 HOH HOH 75 B HOH 76 4 HOH HOH 76 B DC 1 n 1 DC 1 A DG 2 n 2 DG 2 A DA 3 n 3 DA 3 A DT 4 n 4 DT 4 A DC 5 n 5 DC 5 A DG 6 n 6 DG 6 A 6MA 7 n 7 6MA 7 A DT 8 n 8 DT 8 A DC 9 n 9 DC 9 A DG 10 n 10 DG 10 A DC 11 n 1 DC 11 B DG 12 n 2 DG 12 B DA 13 n 3 DA 13 B DT 14 n 4 DT 14 B DC 15 n 5 DC 15 B DG 16 n 6 DG 16 B 6MA 17 n 7 6MA 17 B DT 18 n 8 DT 18 B DC 19 n 9 DC 19 B DG 20 n 10 DG 20 B author_defined_assembly 2 dimeric B DG 16 B OP1 DG 6 1_555 B MG 23 E MG MG 1_555 B HOH 72 G O HOH 1_555 174.8 B DG 16 B OP1 DG 6 1_555 B MG 23 E MG MG 1_555 B HOH 73 G O HOH 1_555 87.7 B HOH 72 G O HOH 1_555 B MG 23 E MG MG 1_555 B HOH 73 G O HOH 1_555 90.3 B DG 16 B OP1 DG 6 1_555 B MG 23 E MG MG 1_555 B HOH 74 G O HOH 1_555 95.2 B HOH 72 G O HOH 1_555 B MG 23 E MG MG 1_555 B HOH 74 G O HOH 1_555 86.9 B HOH 73 G O HOH 1_555 B MG 23 E MG MG 1_555 B HOH 74 G O HOH 1_555 177.1 B DG 16 B OP1 DG 6 1_555 B MG 23 E MG MG 1_555 B HOH 75 G O HOH 1_555 85.6 B HOH 72 G O HOH 1_555 B MG 23 E MG MG 1_555 B HOH 75 G O HOH 1_555 89.7 B HOH 73 G O HOH 1_555 B MG 23 E MG MG 1_555 B HOH 75 G O HOH 1_555 92.6 B HOH 74 G O HOH 1_555 B MG 23 E MG MG 1_555 B HOH 75 G O HOH 1_555 88.1 B DG 16 B OP1 DG 6 1_555 B MG 23 E MG MG 1_555 B HOH 76 G O HOH 1_555 95.0 B HOH 72 G O HOH 1_555 B MG 23 E MG MG 1_555 B HOH 76 G O HOH 1_555 89.9 B HOH 73 G O HOH 1_555 B MG 23 E MG MG 1_555 B HOH 76 G O HOH 1_555 92.2 B HOH 74 G O HOH 1_555 B MG 23 E MG MG 1_555 B HOH 76 G O HOH 1_555 87.1 B HOH 75 G O HOH 1_555 B MG 23 E MG MG 1_555 B HOH 76 G O HOH 1_555 175.2 B HOH 69 G O HOH 1_555 B MG 22 D MG MG 4_555 B HOH 69 G O HOH 1_555 0.0 B HOH 69 G O HOH 1_555 B MG 22 D MG MG 4_555 B HOH 70 G O HOH 1_555 94.9 B HOH 69 G O HOH 1_555 B MG 22 D MG MG 4_555 B HOH 70 G O HOH 1_555 94.9 B HOH 69 G O HOH 1_555 B MG 22 D MG MG 4_555 B HOH 70 G O HOH 1_555 94.9 B HOH 69 G O HOH 1_555 B MG 22 D MG MG 4_555 B HOH 70 G O HOH 1_555 94.9 B HOH 70 G O HOH 1_555 B MG 22 D MG MG 4_555 B HOH 70 G O HOH 1_555 0.0 B HOH 69 G O HOH 1_555 B MG 22 D MG MG 4_555 B HOH 71 G O HOH 1_555 89.1 B HOH 69 G O HOH 1_555 B MG 22 D MG MG 4_555 B HOH 71 G O HOH 1_555 89.1 B HOH 70 G O HOH 1_555 B MG 22 D MG MG 4_555 B HOH 71 G O HOH 1_555 86.3 B HOH 70 G O HOH 1_555 B MG 22 D MG MG 4_555 B HOH 71 G O HOH 1_555 86.3 A 6MA 7 A 6MA 7 A B 6MA 17 B 6MA 7 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 B CL 21 C CL 1 B MG 22 D MG 1 A A O6 O DG HOH 10 66 2.11 1 B B N4 O DC HOH 11 65 2.18 1 -5.27 0.80 102.40 97.13 A A A C3' C2' C1' DC DC DC 1 1 1 N 1 5.36 0.30 108.30 113.66 A A A O4' C1' N1 DC DC DC 1 1 1 N 1 -4.48 0.70 121.90 117.42 A A A N3 C2 O2 DC DC DC 1 1 1 N 1 -10.96 1.60 120.90 109.94 A A A P O5' C5' DG DG DG 2 2 2 N 1 13.72 1.20 119.70 133.42 A A A C3' O3' P DG DG DA 2 2 3 Y 1 7.70 1.20 110.70 118.40 A A A O5' P OP1 DA DA DA 3 3 3 N 1 -10.97 1.60 120.90 109.93 A A A P O5' C5' DA DA DA 3 3 3 N 1 -6.33 0.80 105.90 99.57 A A A O4' C1' C2' DA DA DA 3 3 3 N 1 2.01 0.30 108.30 110.31 A A A O4' C1' N9 DA DA DA 3 3 3 N 1 -3.82 0.50 113.80 109.98 A A A N7 C8 N9 DA DA DA 3 3 3 N 1 2.52 0.40 105.80 108.32 A A A C8 N9 C4 DA DA DA 3 3 3 N 1 6.19 0.30 108.30 114.49 A A A O4' C1' N1 DT DT DT 4 4 4 N 1 3.69 0.60 114.60 118.29 A A A N1 C2 N3 DT DT DT 4 4 4 N 1 -5.60 0.60 127.20 121.60 A A A C2 N3 C4 DT DT DT 4 4 4 N 1 -4.31 0.60 122.30 117.99 A A A N3 C2 O2 DT DT DT 4 4 4 N 1 17.23 1.20 119.70 136.93 A A A C3' O3' P DT DT DC 4 4 5 Y 1 -8.22 0.80 109.40 101.18 A A A O5' C5' C4' DC DC DC 5 5 5 N 1 -4.37 0.40 120.30 115.93 A A A C6 N1 C2 DC DC DC 5 5 5 N 1 10.63 0.50 119.90 130.53 A A A C2 N3 C4 DC DC DC 5 5 5 N 1 -6.82 0.40 121.90 115.08 A A A N3 C4 C5 DC DC DC 5 5 5 N 1 11.14 1.50 119.60 130.74 A A A OP1 P OP2 DG DG DG 6 6 6 N 1 -4.94 0.80 102.40 97.46 A A A C3' C2' C1' DG DG DG 6 6 6 N 1 -7.33 0.80 105.90 98.57 A A A O4' C1' C2' DG DG DG 6 6 6 N 1 6.28 0.30 108.30 114.58 A A A O4' C1' N9 DG DG DG 6 6 6 N 1 -6.78 0.60 125.10 118.32 A A A C6 N1 C2 DG DG DG 6 6 6 N 1 -4.42 0.50 128.60 124.18 A A A N3 C4 C5 DG DG DG 6 6 6 N 1 4.24 0.60 118.80 123.04 A A A C4 C5 C6 DG DG DG 6 6 6 N 1 -3.56 0.40 110.80 107.24 A A A C4 C5 N7 DG DG DG 6 6 6 N 1 5.63 0.40 105.40 111.03 A A A N9 C4 C5 DG DG DG 6 6 6 N 1 -4.21 0.60 119.90 115.69 A A A N1 C6 O6 DG DG DG 6 6 6 N 1 -15.29 2.20 105.20 89.91 A A A O3' P OP1 DG 6MA 6MA 6 7 7 Y 1 31.29 1.20 119.70 150.99 A A A C3' O3' P 6MA 6MA DT 7 7 8 Y 1 -4.85 0.80 109.40 104.55 A A A O5' C5' C4' DT DT DT 8 8 8 N 1 -10.22 1.60 120.90 110.68 A A A P O5' C5' DT DT DT 8 8 8 N 1 5.30 0.30 108.30 113.60 A A A O4' C1' N1 DT DT DT 8 8 8 N 1 -6.95 0.60 127.20 120.25 A A A C2 N3 C4 DT DT DT 8 8 8 N 1 -5.83 0.60 122.30 116.47 A A A N3 C2 O2 DT DT DT 8 8 8 N 1 -5.36 0.60 119.90 114.54 A A A N3 C4 O4 DT DT DT 8 8 8 N 1 8.75 1.20 119.70 128.45 A A A C3' O3' P DT DT DC 8 8 9 Y 1 -12.04 1.60 120.90 108.86 A A A P O5' C5' DC DC DC 9 9 9 N 1 8.54 0.30 108.30 116.84 A A A O4' C1' N1 DC DC DC 9 9 9 N 1 5.43 0.50 119.90 125.33 A A A C2 N3 C4 DC DC DC 9 9 9 N 1 3.79 0.50 121.00 124.79 A A A C5 C6 N1 DC DC DC 9 9 9 N 1 4.90 0.70 121.90 126.80 A A A N3 C2 O2 DC DC DC 9 9 9 N 1 -7.91 1.20 119.70 111.79 A A A C3' O3' P DC DC DG 9 9 10 Y 1 -11.61 1.60 120.90 109.29 A A A P O5' C5' DG DG DG 10 10 10 N 1 -6.38 0.80 102.40 96.02 A A A C3' C2' C1' DG DG DG 10 10 10 N 1 4.46 0.30 108.30 112.76 A A A O4' C1' N9 DG DG DG 10 10 10 N 1 -6.11 0.60 125.10 118.99 A A A C6 N1 C2 DG DG DG 10 10 10 N 1 5.26 0.50 111.50 116.76 A A A C5 C6 N1 DG DG DG 10 10 10 N 1 4.88 0.40 110.80 115.68 A A A C4 C5 N7 DG DG DG 10 10 10 N 1 -7.05 0.90 116.20 109.15 A A A N1 C2 N2 DG DG DG 10 10 10 N 1 4.72 0.70 119.90 124.62 A A A N3 C2 N2 DG DG DG 10 10 10 N 1 -4.46 0.60 119.90 115.44 A A A N1 C6 O6 DG DG DG 10 10 10 N 1 -6.63 0.80 109.40 102.77 B B B O5' C5' C4' DC DC DC 11 11 11 N 1 2.45 0.30 108.30 110.75 B B B O4' C1' N1 DC DC DC 11 11 11 N 1 15.52 1.20 119.70 135.22 B B B C3' O3' P DC DC DG 11 11 12 Y 1 8.57 1.10 110.50 119.07 B B B O3' P OP2 DC DG DG 11 12 12 Y 1 -5.07 0.80 109.40 104.33 B B B O5' C5' C4' DG DG DG 12 12 12 N 1 6.48 0.30 108.30 114.78 B B B O4' C1' N9 DG DG DG 12 12 12 N 1 -4.78 0.50 128.60 123.82 B B B N3 C4 C5 DG DG DG 12 12 12 N 1 3.98 0.60 118.80 122.78 B B B C4 C5 C6 DG DG DG 12 12 12 N 1 -3.22 0.40 110.80 107.58 B B B C4 C5 N7 DG DG DG 12 12 12 N 1 3.66 0.40 105.40 109.06 B B B N9 C4 C5 DG DG DG 12 12 12 N 1 25.65 1.20 119.70 145.35 B B B C3' O3' P DG DG DA 12 12 13 Y 1 -6.88 0.90 105.70 98.82 B B B O5' P OP1 DA DA DA 13 13 13 N 1 -7.50 0.80 109.40 101.90 B B B O5' C5' C4' DA DA DA 13 13 13 N 1 3.61 0.60 118.60 122.21 B B B C6 N1 C2 DA DA DA 13 13 13 N 1 -3.22 0.50 117.70 114.48 B B B C5 C6 N1 DA DA DA 13 13 13 N 1 4.39 0.50 103.90 108.29 B B B C5 N7 C8 DA DA DA 13 13 13 N 1 -12.24 1.90 104.00 91.76 B B B O3' P O5' DA DT DT 13 14 14 Y 1 11.53 1.50 119.60 131.13 B B B OP1 P OP2 DT DT DT 14 14 14 N 1 -7.72 0.80 109.40 101.68 B B B O5' C5' C4' DT DT DT 14 14 14 N 1 -13.83 1.60 120.90 107.07 B B B P O5' C5' DT DT DT 14 14 14 N 1 4.01 0.30 108.30 112.31 B B B O4' C1' N1 DT DT DT 14 14 14 N 1 4.02 0.60 115.20 119.22 B B B N3 C4 C5 DT DT DT 14 14 14 N 1 -4.16 0.60 122.30 118.14 B B B N3 C2 O2 DT DT DT 14 14 14 N 1 -4.47 0.60 119.90 115.43 B B B N3 C4 O4 DT DT DT 14 14 14 N 1 5.53 0.60 119.00 124.53 B B B C4 C5 C7 DT DT DT 14 14 14 N 1 -5.38 0.80 109.40 104.02 B B B O5' C5' C4' DC DC DC 15 15 15 N 1 -5.02 0.80 102.40 97.38 B B B C3' C2' C1' DC DC DC 15 15 15 N 1 9.73 0.30 108.30 118.03 B B B O4' C1' N1 DC DC DC 15 15 15 N 1 10.11 1.20 119.70 129.81 B B B C3' O3' P DC DC DG 15 15 16 Y 1 -5.24 0.80 109.40 104.16 B B B O5' C5' C4' DG DG DG 16 16 16 N 1 -12.79 1.60 120.90 108.11 B B B P O5' C5' DG DG DG 16 16 16 N 1 -3.10 0.50 128.60 125.50 B B B N3 C4 C5 DG DG DG 16 16 16 N 1 4.77 0.60 119.90 124.67 B B B N1 C6 O6 DG DG DG 16 16 16 N 1 -6.40 0.60 128.60 122.20 B B B C5 C6 O6 DG DG DG 16 16 16 N 1 7.52 1.10 110.50 118.02 B B B O3' P OP2 DG 6MA 6MA 16 17 17 Y 1 7.71 1.20 110.70 118.41 B B B O5' P OP1 DT DT DT 18 18 18 N 1 -6.10 0.80 109.40 103.30 B B B O5' C5' C4' DT DT DT 18 18 18 N 1 -3.83 0.40 104.50 100.67 B B B O4' C4' C3' DT DT DT 18 18 18 N 1 -8.04 1.00 110.10 102.06 B B B C1' O4' C4' DT DT DT 18 18 18 N 1 -4.97 0.60 127.20 122.23 B B B C2 N3 C4 DT DT DT 18 18 18 N 1 -6.10 0.60 119.90 113.80 B B B N3 C4 O4 DT DT DT 18 18 18 N 1 10.57 1.10 110.50 121.07 B B B O3' P OP2 DT DC DC 18 19 19 Y 1 -14.70 2.20 105.20 90.50 B B B O3' P OP1 DT DC DC 18 19 19 Y 1 -7.65 0.80 109.40 101.75 B B B O5' C5' C4' DC DC DC 19 19 19 N 1 -3.06 0.40 120.30 117.24 B B B C6 N1 C2 DC DC DC 19 19 19 N 1 16.54 1.20 119.70 136.24 B B B C3' O3' P DC DC DG 19 19 20 Y 1 -15.75 2.20 105.20 89.45 B B B O3' P OP1 DC DG DG 19 20 20 Y 1 17.01 1.20 110.70 127.71 B B B O5' P OP1 DG DG DG 20 20 20 N 1 -17.01 1.60 120.90 103.89 B B B P O5' C5' DG DG DG 20 20 20 N 1 -5.18 0.80 105.90 100.72 B B B O4' C1' C2' DG DG DG 20 20 20 N 1 6.21 0.30 108.30 114.51 B B B O4' C1' N9 DG DG DG 20 20 20 N 1 -5.25 0.60 125.10 119.85 B B B C6 N1 C2 DG DG DG 20 20 20 N 1 6.41 0.50 111.50 117.91 B B B C5 C6 N1 DG DG DG 20 20 20 N 1 2.94 0.40 110.80 113.74 B B B C4 C5 N7 DG DG DG 20 20 20 N 1 -8.69 0.60 119.90 111.21 B B B N1 C6 O6 DG DG DG 20 20 20 N 1 A A O3' C3' DG DG 2 2 -0.039 0.006 1.419 1.380 N 1 A A N1 C2 DA DA 3 3 0.077 0.009 1.339 1.416 N 1 A A C4 C5 DA DA 3 3 -0.044 0.007 1.383 1.339 N 1 A A N7 C8 DA DA 3 3 -0.042 0.007 1.311 1.269 N 1 A A O4' C4' DT DT 4 4 -0.079 0.010 1.446 1.367 N 1 A A C5' C4' DC DC 5 5 0.047 0.007 1.512 1.559 N 1 A A N1 C2 DC DC 5 5 0.086 0.010 1.397 1.483 N 1 A A C2 N3 DC DC 5 5 -0.053 0.008 1.353 1.300 N 1 A A N3 C4 DC DC 5 5 -0.043 0.007 1.335 1.292 N 1 A A C4 C5 DC DC 5 5 0.057 0.008 1.425 1.482 N 1 A A C8 N9 DG DG 6 6 0.048 0.007 1.374 1.422 N 1 A A C3' C2' DT DT 8 8 -0.054 0.008 1.516 1.462 N 1 A A O4' C4' DT DT 8 8 -0.082 0.010 1.446 1.364 N 1 A A C6 N1 DT DT 8 8 -0.047 0.007 1.378 1.331 N 1 A A O4' C4' DC DC 9 9 -0.085 0.010 1.446 1.361 N 1 B B C5' C4' DG DG 12 12 0.084 0.007 1.512 1.596 N 1 B B N3 C4 DG DG 12 12 0.094 0.007 1.350 1.444 N 1 B B C4 C5 DG DG 12 12 -0.045 0.007 1.379 1.334 N 1 B B C6 N1 DG DG 12 12 -0.050 0.007 1.391 1.341 N 1 B B C5 N7 DG DG 12 12 0.100 0.006 1.388 1.488 N 1 B B C4 C5 DA DA 13 13 0.047 0.007 1.383 1.430 N 1 B B C6 N1 DA DA 13 13 0.084 0.007 1.351 1.435 N 1 B B C5 N7 DA DA 13 13 -0.051 0.006 1.388 1.337 N 1 B B P OP1 DC DC 15 15 0.107 0.017 1.485 1.592 N 1 B B O4' C4' DC DC 15 15 -0.096 0.010 1.446 1.350 N 1 B B C4 N4 DC DC 15 15 0.062 0.009 1.335 1.397 N 1 B B C2 N3 DC DC 15 15 0.053 0.008 1.353 1.406 N 1 B B O3' P DC DG 15 16 -0.092 0.012 1.607 1.515 Y 1 B B O4' C1' DG DG 16 16 0.068 0.011 1.420 1.488 N 1 B B N1 C2 DG DG 16 16 -0.049 0.008 1.373 1.324 N 1 B B C2 N3 DG DG 16 16 0.069 0.008 1.323 1.392 N 1 B B C4 C5 DG DG 16 16 0.050 0.007 1.379 1.429 N 1 B B C5 C6 DG DG 16 16 0.061 0.010 1.419 1.480 N 1 B B C6 N1 DG DG 16 16 -0.067 0.007 1.391 1.324 N 1 B B N9 C4 DG DG 16 16 -0.078 0.008 1.375 1.297 N 1 B B C6 N1 DT DT 18 18 -0.079 0.007 1.378 1.299 N 1 B B C5' C4' DC DC 19 19 0.063 0.007 1.512 1.575 N 1 B B C4 N4 DC DC 19 19 0.075 0.009 1.335 1.410 N 1 B B N3 C4 DC DC 19 19 -0.045 0.007 1.335 1.290 N 1 B B O4' C4' DG DG 20 20 -0.067 0.010 1.446 1.379 N 1 B B N3 C4 DG DG 20 20 0.047 0.007 1.350 1.397 N 1 B B C4 C5 DG DG 20 20 -0.075 0.007 1.379 1.304 N 0.172 2.000 8.000 2282 1 2.000 TR isotropic TR isotropic 2.000 8.000 53 462 3 406 0 0.017 fix fix 2.000 8.000 1DA3 2282 2.000 1 refinement NUCLSQ THE CRYSTAL STRUCTURE OF THE TRIGONAL DECAMER C-G-A-T-C-G-6MEA-T-C-G: A B-DNA HELIX WITH 10.6 BASE-PAIRS PER TURN 1 N N 1 N N 2 N N 3 N N 3 N N 4 N N 4 N N covale 1.621 both A DG 6 A O3' DG 6 1_555 A 6MA 7 A P 6MA 7 1_555 covale 1.655 both A 6MA 7 A O3' 6MA 7 1_555 A DT 8 A P DT 8 1_555 covale 1.570 both B DG 16 B O3' DG 6 1_555 B 6MA 17 B P 6MA 7 1_555 covale 1.597 both B 6MA 17 B O3' 6MA 7 1_555 B DT 18 B P DT 8 1_555 metalc 2.374 B DG 16 B OP1 DG 6 1_555 B MG 23 E MG MG 1_555 metalc 1.992 B MG 22 D MG MG 4_555 B HOH 69 G O HOH 1_555 metalc 1.992 B MG 22 D MG MG 1_555 B HOH 69 G O HOH 1_555 metalc 2.071 B MG 22 D MG MG 4_555 B HOH 70 G O HOH 1_555 metalc 2.071 B MG 22 D MG MG 1_555 B HOH 70 G O HOH 1_555 metalc 2.087 B MG 22 D MG MG 1_555 B HOH 71 G O HOH 1_555 metalc 2.090 B MG 23 E MG MG 1_555 B HOH 72 G O HOH 1_555 metalc 1.932 B MG 23 E MG MG 1_555 B HOH 73 G O HOH 1_555 metalc 2.029 B MG 23 E MG MG 1_555 B HOH 74 G O HOH 1_555 metalc 2.050 B MG 23 E MG MG 1_555 B HOH 75 G O HOH 1_555 metalc 2.010 B MG 23 E MG MG 1_555 B HOH 76 G O HOH 1_555 hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 B DG 20 B N1 DG 10 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 B DG 20 B O6 DG 10 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 B DG 20 B N2 DG 10 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B DC 19 B N3 DC 9 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B DC 19 B O2 DC 9 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B DC 19 B N4 DC 9 1_555 hydrog WATSON-CRICK A DA 3 A N1 DA 3 1_555 B DT 18 B N3 DT 8 1_555 hydrog WATSON-CRICK A DA 3 A N6 DA 3 1_555 B DT 18 B O4 DT 8 1_555 hydrog WATSON-CRICK A DT 4 A N3 DT 4 1_555 B 6MA 17 B N1 6MA 7 1_555 hydrog WATSON-CRICK A DT 4 A O4 DT 4 1_555 B 6MA 17 B N6 6MA 7 1_555 hydrog WATSON-CRICK A DC 5 A N3 DC 5 1_555 B DG 16 B N1 DG 6 1_555 hydrog WATSON-CRICK A DC 5 A N4 DC 5 1_555 B DG 16 B O6 DG 6 1_555 hydrog WATSON-CRICK A DC 5 A O2 DC 5 1_555 B DG 16 B N2 DG 6 1_555 hydrog WATSON-CRICK A DG 6 A N1 DG 6 1_555 B DC 15 B N3 DC 5 1_555 hydrog WATSON-CRICK A DG 6 A N2 DG 6 1_555 B DC 15 B O2 DC 5 1_555 hydrog WATSON-CRICK A DG 6 A O6 DG 6 1_555 B DC 15 B N4 DC 5 1_555 hydrog WATSON-CRICK A 6MA 7 A N1 6MA 7 1_555 B DT 14 B N3 DT 4 1_555 hydrog WATSON-CRICK A 6MA 7 A N6 6MA 7 1_555 B DT 14 B O4 DT 4 1_555 hydrog WATSON-CRICK A DT 8 A N3 DT 8 1_555 B DA 13 B N1 DA 3 1_555 hydrog WATSON-CRICK A DT 8 A O4 DT 8 1_555 B DA 13 B N6 DA 3 1_555 hydrog WATSON-CRICK A DC 9 A N3 DC 9 1_555 B DG 12 B N1 DG 2 1_555 hydrog WATSON-CRICK A DC 9 A N4 DC 9 1_555 B DG 12 B O6 DG 2 1_555 hydrog WATSON-CRICK A DC 9 A O2 DC 9 1_555 B DG 12 B N2 DG 2 1_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 B DC 11 B N3 DC 1 1_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 B DC 11 B O2 DC 1 1_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 B DC 11 B N4 DC 1 1_555 DNA B-DNA, DOUBLE HELIX, MODIFIED, DNA 1DA3 PDB 1 1DA3 1 10 1DA3 1 10 1DA3 A 1 1 10 11 20 1DA3 11 20 1DA3 B 1 1 10 BINDING SITE FOR RESIDUE CL B 21 B CL 21 Software 6 BINDING SITE FOR RESIDUE MG B 22 B MG 22 Software 6 BINDING SITE FOR RESIDUE MG B 23 B MG 23 Software 6 B DT 18 B DT 8 6 4_555 B DT 18 B DT 8 6 1_555 B HOH 44 G HOH 6 1_555 B HOH 44 G HOH 6 4_555 B HOH 51 G HOH 6 4_555 B HOH 51 G HOH 6 1_555 B HOH 69 G HOH 6 4_555 B HOH 69 G HOH 6 1_555 B HOH 70 G HOH 6 4_555 B HOH 70 G HOH 6 1_555 B HOH 71 G HOH 6 1_555 B HOH 71 G HOH 6 4_555 B DG 16 B DG 6 6 1_555 B HOH 72 G HOH 6 1_555 B HOH 73 G HOH 6 1_555 B HOH 74 G HOH 6 1_555 B HOH 75 G HOH 6 1_555 B HOH 76 G HOH 6 1_555 154 P 32 2 1