0.031400 0.000000 0.014556 0.000000 0.039841 0.000000 0.000000 0.000000 0.032281 0.000000 0.000000 0.000000 Chiu, T.K. Dickerson, R.E. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 114.87 90.00 31.847 25.100 34.144 Ca 2 40.078 CALCIUM 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 C2 H6 O 46.068 ETHANOL non-polymer H2 O 18.015 WATER non-polymer N 1 N CA N 2 N O N 3 N P N 4 N O N 5 N O N 6 N O N 7 N C N 8 R C N 9 N O N 10 S C N 11 N O N 12 N C 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 O N 39 N P N 40 N O N 41 N O N 42 N O N 43 N C N 44 R C N 45 N O N 46 S C N 47 N O N 48 N C N 49 R C N 50 N N N 51 N C N 52 N O N 53 N N N 54 N C N 55 N N N 56 N C N 57 N C N 58 N H N 59 N H N 60 N H N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N H N 71 N H N 72 N O N 73 N P N 74 N O N 75 N O N 76 N O N 77 N C N 78 R C N 79 N O N 80 S C N 81 N O N 82 N C N 83 R C Y 84 N N Y 85 N C Y 86 N N Y 87 N C N 88 N C N 89 N O N 90 N N N 91 N C N 92 N N N 93 N N Y 94 N C 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 O N 110 N P N 111 N O N 112 N O N 113 N O N 114 N C N 115 R C N 116 N O N 117 S C N 118 N O N 119 N C N 120 R C N 121 N N N 122 N C N 123 N O N 124 N N N 125 N C N 126 N O N 127 N C N 128 N C N 129 N C 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 H N 140 N H N 141 N H N 142 N H N 143 N H N 144 N H N 145 N C N 146 N C N 147 N O N 148 N H N 149 N H N 150 N H N 151 N H N 152 N H N 153 N H N 154 N O N 155 N H N 156 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 Y 24 N sing Y 25 N sing Y 26 N doub N 27 N sing Y 28 N sing Y 29 N sing Y 30 N doub N 31 N sing Y 32 N doub N 33 N sing N 34 N sing Y 35 N sing Y 36 N doub N 37 N sing Y 38 N sing N 39 N sing N 40 N sing N 41 N doub N 42 N sing N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing N 58 N sing N 59 N sing N 60 N sing N 61 N sing N 62 N sing N 63 N sing N 64 N doub N 65 N sing N 66 N doub N 67 N sing N 68 N sing N 69 N sing N 70 N sing N 71 N doub N 72 N sing N 73 N sing N 74 N sing N 75 N sing N 76 N doub N 77 N sing N 78 N sing N 79 N sing N 80 N sing N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing Y 97 N sing Y 98 N sing Y 99 N doub N 100 N sing Y 101 N sing N 102 N sing Y 103 N doub N 104 N doub N 105 N sing N 106 N sing N 107 N sing N 108 N sing N 109 N doub N 110 N sing N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N doub 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 sing N 135 N sing N 136 N sing N 137 N sing N 138 N doub N 139 N sing N 140 N sing N 141 N sing N 142 N doub N 143 N sing N 144 N sing N 145 N doub 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 UK J.Mol.Biol. JMOBAK 0070 0022-2836 301 915 945 10.1006/jmbi.2000.4012 10966796 1 A crystal structures of B-DNA reveal sequence-specific binding and groove-specific bending of DNA by magnesium and calcium. 2000 UK J.Mol.Biol. JMOBAK 0070 0022-2836 292 589 608 10.1006/jmbi.1999.3075 Absence of minor groove monovalent cations in the crosslinked dodecamer CGCGAATTCGCG. 1999 10.2210/pdb1en8/pdb pdb_00001en8 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 IMAGE PLATE 1998-11-19 MARRESEARCH SINGLE WAVELENGTH M x-ray 1 0.9500 1.0 X8C NSLS 0.9500 SYNCHROTRON NSLS BEAMLINE X8C 3045.004 DNA (5'-D(*CP*CP*AP*AP*CP*GP*TP*TP*GP*G)-3') 1 syn polymer 40.078 CALCIUM ION 4 syn non-polymer 46.068 ETHANOL 4 syn non-polymer 18.015 water 80 nat water no no (DC)(DC)(DA)(DA)(DC)(DG)(DT)(DT)(DG)(DG) CCAACGTTGG A polydeoxyribonucleotide n n n n n n n n n n 1 2.02 36.96 VAPOR DIFFUSION, SITTING DROP initial concentration in droplet: 0.24 mM dna, 8.57 mM calcium acetate, 0.11 mM streptonigrin, 10-15% MPD, 45% final MPD concentration in reservoir. Solutions were unbuffered, VAPOR DIFFUSION, SITTING DROP, temperature 275.0K 275.0 calcium acetate 1 streptonigrin 1 MPD 1 MPD 2 -6.288 1 19 A 1 A 10 0.956 A_DC1:DG10_A 1 -15.327 0.176 0.054 -0.156 -0.330 1 19 A 2 A 9 -1.463 A_DC2:DG9_A 2 -10.116 0.313 0.068 -0.181 -1.543 1 20 A 3 A 8 2.629 A_DA3:DT8_A 3 -7.378 -0.063 0.138 -0.156 -0.744 1 20 A 4 A 7 1.827 A_DA4:DT7_A 4 -11.761 0.065 0.119 -0.198 3.044 1 19 A 5 A 6 0.058 A_DC5:DG6_A 5 -2.527 0.181 -0.169 -0.249 -3.044 1 19 A 6 A 5 0.058 A_DG6:DC5_A 6 -2.527 -0.181 -0.169 -0.249 0.744 1 20 A 7 A 4 1.827 A_DT7:DA4_A 7 -11.761 -0.065 0.119 -0.198 1.543 1 20 A 8 A 3 2.629 A_DT8:DA3_A 8 -7.378 0.063 0.138 -0.156 0.330 1 19 A 9 A 2 -1.463 A_DG9:DC2_A 9 -10.116 -0.313 0.068 -0.181 6.288 1 19 A 10 A 1 0.956 A_DG10:DC1_A 10 -15.327 -0.176 0.054 -0.156 3.195 30.546 A A 1 2 21.081 A A 10 9 3.213 10.858 -0.707 0.749 AA_DC1DC2:DG9DG10_AA 1 2.806 -5.448 28.459 -0.768 1.908 2.720 50.654 A A 2 3 -10.399 A A 9 8 3.257 -8.856 0.325 2.960 AA_DC2DA3:DT8DG9_AA 2 -1.266 1.487 49.909 4.035 -0.462 3.228 30.785 A A 3 4 16.402 A A 8 7 3.339 8.592 0.224 0.121 AA_DA3DA4:DT7DT8_AA 3 -1.688 3.223 29.542 -1.493 -0.760 3.166 31.285 A A 4 5 7.243 A A 7 6 3.226 3.890 0.296 -0.412 AA_DA4DC5:DG6DT7_AA 4 3.040 -5.660 30.902 -1.488 0.017 3.478 42.423 A A 5 6 2.932 A A 6 5 3.430 2.121 0.000 1.105 AA_DC5DG6:DC5DG6_AA 5 0.000 0.000 42.373 1.299 0.000 3.166 31.285 A A 6 7 7.243 A A 5 4 3.226 3.890 -0.296 -0.412 AA_DG6DT7:DA4DC5_AA 6 -3.040 5.660 30.902 -1.488 -0.017 3.228 30.785 A A 7 8 16.402 A A 4 3 3.339 8.592 -0.224 0.121 AA_DT7DT8:DA3DA4_AA 7 1.689 -3.223 29.542 -1.493 0.760 2.720 50.654 A A 8 9 -10.399 A A 3 2 3.257 -8.856 -0.325 2.960 AA_DT8DG9:DC2DA3_AA 8 1.266 -1.487 49.909 4.035 0.462 3.195 30.546 A A 9 10 21.081 A A 2 1 3.213 10.858 0.707 0.749 AA_DG9DG10:DC1DC2_AA 9 -2.806 5.448 28.459 -0.768 -1.908 chem_comp_atom chem_comp_bond database_2 pdbx_struct_conn_angle struct_conn struct_site pdbx_initial_refinement_model repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations Refinement description 1 0 2000-09-25 1 1 2008-04-27 1 2 2011-07-13 1 3 2024-02-07 1 4 2024-04-03 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_alt_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.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_alt_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.ptnr3_symmetry _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr2_label_alt_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.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_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id NDB Y NDB 2000-03-20 REL REL CA CALCIUM ION EOH ETHANOL HOH water 5DNB BDJ019 PDB experimental model 543 111 2 CA CA 111 A OC7 112 2 CA CA 112 A OC5 113 2 CA CA 113 A OC4 114 2 CA CA 114 A 543 111 3 EOH EOH 115 A EOH 228 3 EOH EOH 228 A EOH 231 3 EOH EOH 231 A EOH 207 3 EOH EOH 207 A HOH 199 4 HOH HOH 199 A HOH 200 4 HOH HOH 200 A HOH 201 4 HOH HOH 201 A HOH 202 4 HOH HOH 202 A HOH 203 4 HOH HOH 203 A HOH 204 4 HOH HOH 204 A HOH 205 4 HOH HOH 205 A HOH 209 4 HOH HOH 209 A HOH 210 4 HOH HOH 210 A HOH 211 4 HOH HOH 211 A HOH 212 4 HOH HOH 212 A HOH 213 4 HOH HOH 213 A HOH 214 4 HOH HOH 214 A HOH 215 4 HOH HOH 215 A HOH 216 4 HOH HOH 216 A HOH 217 4 HOH HOH 217 A HOH 218 4 HOH HOH 218 A HOH 219 4 HOH HOH 219 A HOH 220 4 HOH HOH 220 A HOH 221 4 HOH HOH 221 A HOH 222 4 HOH HOH 222 A HOH 223 4 HOH HOH 223 A HOH 224 4 HOH HOH 224 A HOH 225 4 HOH HOH 225 A HOH 226 4 HOH HOH 226 A HOH 227 4 HOH HOH 227 A HOH 229 4 HOH HOH 229 A HOH 230 4 HOH HOH 230 A HOH 234 4 HOH HOH 234 A HOH 235 4 HOH HOH 235 A HOH 236 4 HOH HOH 236 A HOH 237 4 HOH HOH 237 A HOH 238 4 HOH HOH 238 A HOH 239 4 HOH HOH 239 A HOH 240 4 HOH HOH 240 A HOH 241 4 HOH HOH 241 A HOH 244 4 HOH HOH 244 A HOH 245 4 HOH HOH 245 A HOH 246 4 HOH HOH 246 A HOH 248 4 HOH HOH 248 A HOH 250 4 HOH HOH 250 A HOH 252 4 HOH HOH 252 A HOH 255 4 HOH HOH 255 A HOH 258 4 HOH HOH 258 A HOH 261 4 HOH HOH 261 A HOH 262 4 HOH HOH 262 A HOH 263 4 HOH HOH 263 A HOH 264 4 HOH HOH 264 A HOH 266 4 HOH HOH 266 A HOH 269 4 HOH HOH 269 A HOH 1022 4 HOH HOH 1022 A HOH 1029 4 HOH HOH 1029 A HOH 1042 4 HOH HOH 1042 A HOH 1045 4 HOH HOH 1045 A HOH 1046 4 HOH HOH 1046 A HOH 1051 4 HOH HOH 1051 A HOH 1052 4 HOH HOH 1052 A HOH 1058 4 HOH HOH 1058 A 543 111 4 HOH HOH 1059 A 543 111 4 HOH HOH 1060 A 543 111 4 HOH HOH 1061 A 543 111 4 HOH HOH 1062 A 543 111 4 HOH HOH 1063 A 543 111 4 HOH HOH 1064 A OC7 112 4 HOH HOH 1065 A OC7 112 4 HOH HOH 1066 A OC7 112 4 HOH HOH 1067 A OC7 112 4 HOH HOH 1068 A OC7 112 4 HOH HOH 1069 A OC7 112 4 HOH HOH 1070 A OC7 112 4 HOH HOH 1071 A OC5 113 4 HOH HOH 1072 A OC5 113 4 HOH HOH 1073 A OC5 113 4 HOH HOH 1074 A OC5 113 4 HOH HOH 1075 A OC5 113 4 HOH HOH 1076 A OC4 114 4 HOH HOH 1077 A OC4 114 4 HOH HOH 1078 A OC4 114 4 HOH HOH 1079 A OC4 114 4 HOH HOH 1080 A C 1 n 1 DC 1 A C 2 n 2 DC 2 A A 3 n 3 DA 3 A A 4 n 4 DA 4 A C 5 n 5 DC 5 A G 6 n 6 DG 6 A T 7 n 7 DT 7 A T 8 n 8 DT 8 A G 9 n 9 DG 9 A G 10 n 10 DG 10 A 0.1170000 0.1390000 662 5 13185 author_defined_assembly 2 dimeric A DG 9 A N7 DG 9 1_555 A CA 113 D D CA CA 1_555 A DG 10 A O6 DG 10 1_555 78.9 A DG 9 A N7 DG 9 1_555 A CA 113 D D CA CA 1_555 A HOH 1072 D J O HOH 1_555 140.5 A DG 10 A O6 DG 10 1_555 A CA 113 D D CA CA 1_555 A HOH 1072 D J O HOH 1_555 136.4 A DG 9 A N7 DG 9 1_555 A CA 113 D D CA CA 1_555 A HOH 1073 D J O HOH 1_555 77.1 A DG 10 A O6 DG 10 1_555 A CA 113 D D CA CA 1_555 A HOH 1073 D J O HOH 1_555 153.3 A HOH 1072 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1073 D J O HOH 1_555 70.2 A DG 9 A N7 DG 9 1_555 A CA 113 D D CA CA 1_555 A HOH 1074 D J O HOH 1_555 91.3 A DG 10 A O6 DG 10 1_555 A CA 113 D D CA CA 1_555 A HOH 1074 D J O HOH 1_555 85.9 A HOH 1072 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1074 D J O HOH 1_555 105.6 A HOH 1073 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1074 D J O HOH 1_555 83.2 A DG 9 A N7 DG 9 1_555 A CA 113 D D CA CA 1_555 A HOH 1075 D J O HOH 1_555 81.4 A DG 10 A O6 DG 10 1_555 A CA 113 D D CA CA 1_555 A HOH 1075 D J O HOH 1_555 89.7 A HOH 1072 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1075 D J O HOH 1_555 82.0 A HOH 1073 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1075 D J O HOH 1_555 98.0 A HOH 1074 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1075 D J O HOH 1_555 172.2 A DG 9 A N7 DG 9 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 1_555 143.0 A DG 10 A O6 DG 10 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 1_555 64.0 A HOH 1072 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 1_555 74.9 A HOH 1073 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 1_555 138.7 A HOH 1074 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 1_555 85.9 A HOH 1075 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 1_555 98.1 A DG 9 A N7 DG 9 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 2_657 128.6 A DG 10 A O6 DG 10 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 2_657 61.3 A HOH 1072 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 2_657 89.8 A HOH 1073 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 2_657 128.8 A HOH 1074 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 2_657 56.8 A HOH 1075 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 2_657 126.1 A HOH 1076 D J O HOH 1_555 A CA 113 D D CA CA 1_555 A HOH 1076 D J O HOH 2_657 29.6 A EOH 115 D F O EOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1059 D J O HOH 1_555 81.7 A EOH 115 D F O EOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1060 D J O HOH 1_555 75.2 A HOH 1059 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1060 D J O HOH 1_555 77.5 A EOH 115 D F O EOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1061 D J O HOH 1_555 73.3 A HOH 1059 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1061 D J O HOH 1_555 139.1 A HOH 1060 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1061 D J O HOH 1_555 124.4 A EOH 115 D F O EOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1061 D J O HOH 2_657 89.4 A HOH 1059 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1061 D J O HOH 2_657 108.1 A HOH 1060 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1061 D J O HOH 2_657 162.9 A HOH 1061 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1061 D J O HOH 2_657 41.5 A EOH 115 D F O EOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1062 D J O HOH 1_555 112.3 A HOH 1059 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1062 D J O HOH 1_555 144.9 A HOH 1060 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1062 D J O HOH 1_555 75.6 A HOH 1061 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1062 D J O HOH 1_555 75.6 A HOH 1061 D J O HOH 2_657 A CA 111 D B CA CA 1_555 A HOH 1062 D J O HOH 1_555 104.1 A EOH 115 D F O EOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 1_555 90.7 A HOH 1059 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 1_555 73.1 A HOH 1060 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 1_555 148.9 A HOH 1061 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 1_555 75.4 A HOH 1061 D J O HOH 2_657 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 1_555 35.7 A HOH 1062 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 1_555 135.3 A EOH 115 D F O EOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 2_657 80.2 A HOH 1059 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 2_657 158.4 A HOH 1060 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 2_657 108.9 A HOH 1061 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 2_657 21.5 A HOH 1061 D J O HOH 2_657 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 2_657 60.1 A HOH 1062 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 2_657 54.8 A HOH 1063 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1063 D J O HOH 2_657 95.5 A EOH 115 D F O EOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 1_555 149.4 A HOH 1059 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 1_555 73.5 A HOH 1060 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 1_555 82.1 A HOH 1061 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 1_555 137.2 A HOH 1061 D J O HOH 2_657 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 1_555 114.8 A HOH 1062 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 1_555 80.9 A HOH 1063 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 1_555 98.6 A HOH 1063 D J O HOH 2_657 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 1_555 127.2 A EOH 115 D F O EOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 2_657 103.1 A HOH 1059 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 2_657 124.8 A HOH 1060 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 2_657 52.3 A HOH 1061 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 2_657 92.6 A HOH 1061 D J O HOH 2_657 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 2_657 126.7 A HOH 1062 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 2_657 23.3 A HOH 1063 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 2_657 158.4 A HOH 1063 D J O HOH 2_657 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 2_657 71.2 A HOH 1064 D J O HOH 1_555 A CA 111 D B CA CA 1_555 A HOH 1064 D J O HOH 2_657 77.8 A HOH 1065 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1066 C J O HOH 1_555 102.4 A HOH 1065 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1067 C J O HOH 1_555 144.9 A HOH 1066 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1067 C J O HOH 1_555 87.8 A HOH 1065 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1068 C J O HOH 1_555 72.7 A HOH 1066 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1068 C J O HOH 1_555 89.1 A HOH 1067 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1068 C J O HOH 1_555 141.7 A HOH 1065 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1069 C J O HOH 1_555 66.5 A HOH 1066 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1069 C J O HOH 1_555 77.1 A HOH 1067 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1069 C J O HOH 1_555 83.8 A HOH 1068 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1069 C J O HOH 1_555 132.4 A HOH 1065 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1070 C J O HOH 1_555 81.1 A HOH 1066 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1070 C J O HOH 1_555 176.5 A HOH 1067 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1070 C J O HOH 1_555 89.2 A HOH 1068 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1070 C J O HOH 1_555 92.1 A HOH 1069 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1070 C J O HOH 1_555 104.4 A HOH 1065 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1071 C J O HOH 1_555 141.4 A HOH 1066 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1071 C J O HOH 1_555 87.2 A HOH 1067 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1071 C J O HOH 1_555 71.5 A HOH 1068 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1071 C J O HOH 1_555 70.2 A HOH 1069 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1071 C J O HOH 1_555 151.3 A HOH 1070 C J O HOH 1_555 A CA 112 C C CA CA 1_555 A HOH 1071 C J O HOH 1_555 90.1 A HOH 1077 C J O HOH 1_555 A CA 114 C E CA CA 1_555 A HOH 1078 C J O HOH 1_555 173.9 A HOH 1077 C J O HOH 1_555 A CA 114 C E CA CA 1_555 A HOH 1079 C J O HOH 1_555 87.4 A HOH 1078 C J O HOH 1_555 A CA 114 C E CA CA 1_555 A HOH 1079 C J O HOH 1_555 91.4 A HOH 1077 C J O HOH 1_555 A CA 114 C E CA CA 1_555 A HOH 1080 C J O HOH 1_555 90.1 A HOH 1078 C J O HOH 1_555 A CA 114 C E CA CA 1_555 A HOH 1080 C J O HOH 1_555 90.9 A HOH 1079 C J O HOH 1_555 A CA 114 C E CA CA 1_555 A HOH 1080 C J O HOH 1_555 177.3 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 -1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 -1.0000000000 2_656 -x+1,y,-z+1 crystal symmetry operation 17.4873710704 0.0000000000 30.9776337541 1 A DC 1 A 0.085 SIDE CHAIN 1 A DA 3 0.063 SIDE CHAIN 1 A DG 6 A 0.068 SIDE CHAIN 1 A DT 7 A 0.085 SIDE CHAIN 1 A DG 9 0.061 SIDE CHAIN 1 -4.89 0.80 109.40 104.51 A A A O5' C5' C4' DC DC DC 1 1 1 A A A N 1 -12.02 0.40 104.50 92.48 A A A O4' C4' C3' DC DC DC 1 1 1 A A A N 1 -14.39 1.90 109.30 94.91 A A A C5' C4' O4' DC DC DC 1 1 1 A A A N 1 -10.50 1.00 110.10 99.60 A A A C1' O4' C4' DC DC DC 1 1 1 A A A N 1 -4.91 0.70 108.00 103.09 A A A O4' C1' N1 DC DC DC 1 1 1 A A N 1 2.71 0.30 108.30 111.01 A A A O4' C1' N1 DC DC DC 1 1 1 B B N 1 8.56 1.20 119.70 128.26 A A A C3' O3' P DC DC DC 1 1 2 B B B Y 1 13.29 1.20 119.70 132.99 A A A C3' O3' P DA DA DC 4 4 5 A A A Y 1 5.58 0.50 106.80 112.38 A A A O4' C1' C2' DC DC DC 5 5 5 B B B N 1 9.46 1.40 114.30 123.76 A A A N1 C1' C2' DC DC DC 5 5 5 B B B N 1 -5.91 0.80 109.40 103.49 A A A O5' C5' C4' DG DG DG 6 6 6 A A A N 1 8.88 1.20 115.70 124.58 A A A C5' C4' C3' DG DG DG 6 6 6 B B B N 1 3.00 0.50 111.90 114.90 A A A C2 N3 C4 DG DG DG 6 6 6 N 1 11.30 1.20 119.70 131.00 A A A C3' O3' P DG DG DT 6 6 7 A A A Y 1 -5.41 0.80 109.40 103.99 A A A O5' C5' C4' DT DT DT 7 7 7 B B B N 1 -7.15 0.80 109.40 102.25 A A A O5' C5' C4' DT DT DT 8 8 8 A A A N 1 A A C3' C2' DA DA 4 4 -0.060 0.008 1.516 1.456 A N REFINEMENT STARTED IN X-PLOR 3.843 WITH DNA MODEL FROM BDJ019. AFTER ALL DATA HAS BEEN ADDED AND REFINED BY SIMULATED ANNEALING IN X-PLOR 3.843, REFINEMENT CONTINUED BY CONJUGATE GRADIENT LEAST-SQUARES IN SHELXL-97. THE TOP 50 MOST DISAGREEABLE REFLECTIONS WERE REJECTED TOWARDS THE LATTER STAGES OF REFINEMENT BUT THESE ARE STILL INCLUDED IN THE RELEASED DATA. 0.1405000 0.1183000 0.985 8.0 19026 676 13619 13619 5407 5 97.5 random 1 THROUGHOUT 0 0 MOLECULAR REPLACEMENT BDJ019 Parkinson et al. swat 0.70325 0.7673 22 113 270.8 0.985 8.0 80 526 29 417 0 0.022 0.046 0.060 0.008 0.019 0.063 5.54 0.985 8.0 1EN8 13619 13619 -1.0 0.0440000 1 25.0 5.56 97.5 0.1040000 0.985 1.016 9.1 1322 94.9 model building X-PLOR refinement SHELXL-97 data reduction DENZO data scaling SCALEPACK phasing X-PLOR 1 A CRYSTAL STRUCTURES OF B-DNA REVEAL SEQUENCE-SPECIFIC BINDING AND GROOVE-SPECIFIC BENDING OF DNA BY MAGNESIUM AND CALCIUM 1 N N 2 N N 2 N N 2 N N 2 N N 3 N N 3 N N 3 N N 3 N N 4 N N metalc 2.614 D A DG 9 A N7 DG 9 1_555 A CA 113 D CA CA 1_555 metalc 2.547 D A DG 10 A O6 DG 10 1_555 A CA 113 D CA CA 1_555 metalc 2.445 D D A CA 111 B CA CA 1_555 A EOH 115 F O EOH 1_555 metalc 2.456 D D A CA 111 B CA CA 1_555 A HOH 1059 J O HOH 1_555 metalc 2.496 D D A CA 111 B CA CA 1_555 A HOH 1060 J O HOH 1_555 metalc 2.422 D D A CA 111 B CA CA 1_555 A HOH 1061 J O HOH 1_555 metalc 2.146 D D A CA 111 B CA CA 1_555 A HOH 1061 J O HOH 2_657 metalc 2.366 D D A CA 111 B CA CA 1_555 A HOH 1062 J O HOH 1_555 metalc 2.392 D D A CA 111 B CA CA 1_555 A HOH 1063 J O HOH 1_555 metalc 3.350 D D A CA 111 B CA CA 1_555 A HOH 1063 J O HOH 2_657 metalc 2.417 D D A CA 111 B CA CA 1_555 A HOH 1064 J O HOH 1_555 metalc 2.882 D D A CA 111 B CA CA 1_555 A HOH 1064 J O HOH 2_657 metalc 2.465 C C A CA 112 C CA CA 1_555 A HOH 1065 J O HOH 1_555 metalc 2.409 C C A CA 112 C CA CA 1_555 A HOH 1066 J O HOH 1_555 metalc 2.408 C C A CA 112 C CA CA 1_555 A HOH 1067 J O HOH 1_555 metalc 2.379 C C A CA 112 C CA CA 1_555 A HOH 1068 J O HOH 1_555 metalc 2.387 C C A CA 112 C CA CA 1_555 A HOH 1069 J O HOH 1_555 metalc 2.395 C C A CA 112 C CA CA 1_555 A HOH 1070 J O HOH 1_555 metalc 2.503 C C A CA 112 C CA CA 1_555 A HOH 1071 J O HOH 1_555 metalc 2.412 D D A CA 113 D CA CA 1_555 A HOH 1072 J O HOH 1_555 metalc 2.437 D D A CA 113 D CA CA 1_555 A HOH 1073 J O HOH 1_555 metalc 2.465 D D A CA 113 D CA CA 1_555 A HOH 1074 J O HOH 1_555 metalc 2.381 D D A CA 113 D CA CA 1_555 A HOH 1075 J O HOH 1_555 metalc 2.385 D D A CA 113 D CA CA 1_555 A HOH 1076 J O HOH 1_555 metalc 3.115 D D A CA 113 D CA CA 1_555 A HOH 1076 J O HOH 2_657 metalc 2.389 C C A CA 114 E CA CA 1_555 A HOH 1077 J O HOH 1_555 metalc 2.381 C C A CA 114 E CA CA 1_555 A HOH 1078 J O HOH 1_555 metalc 2.418 C C A CA 114 E CA CA 1_555 A HOH 1079 J O HOH 1_555 metalc 2.446 C C A CA 114 E CA CA 1_555 A HOH 1080 J O HOH 1_555 hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 A DG 10 A N1 DG 10 2_656 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 A DG 10 A O6 DG 10 2_656 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 A DG 10 A N2 DG 10 2_656 hydrog WATSON-CRICK A DC 2 A N3 DC 2 1_555 A DG 9 A N1 DG 9 2_656 hydrog WATSON-CRICK A DC 2 A N4 DC 2 1_555 A DG 9 A O6 DG 9 2_656 hydrog WATSON-CRICK A DC 2 A O2 DC 2 1_555 A DG 9 A N2 DG 9 2_656 hydrog WATSON-CRICK A DA 3 A N1 DA 3 1_555 A DT 8 A N3 DT 8 2_656 hydrog WATSON-CRICK A DA 3 A N6 DA 3 1_555 A DT 8 A O4 DT 8 2_656 hydrog WATSON-CRICK A DA 4 A N1 DA 4 1_555 A DT 7 A N3 DT 7 2_656 hydrog WATSON-CRICK A DA 4 A N6 DA 4 1_555 A DT 7 A O4 DT 7 2_656 hydrog WATSON-CRICK A A DC 5 A N3 DC 5 1_555 A DG 6 A N1 DG 6 2_656 hydrog WATSON-CRICK A A DC 5 A N4 DC 5 1_555 A DG 6 A O6 DG 6 2_656 hydrog WATSON-CRICK A A DC 5 A O2 DC 5 1_555 A DG 6 A N2 DG 6 2_656 hydrog WATSON-CRICK A A DG 6 A N1 DG 6 1_555 A DC 5 A N3 DC 5 2_656 hydrog WATSON-CRICK A A DG 6 A N2 DG 6 1_555 A DC 5 A O2 DC 5 2_656 hydrog WATSON-CRICK A A DG 6 A O6 DG 6 1_555 A DC 5 A N4 DC 5 2_656 hydrog WATSON-CRICK A DT 7 A N3 DT 7 1_555 A DA 4 A N1 DA 4 2_656 hydrog WATSON-CRICK A DT 7 A O4 DT 7 1_555 A DA 4 A N6 DA 4 2_656 hydrog WATSON-CRICK A DT 8 A N3 DT 8 1_555 A DA 3 A N1 DA 3 2_656 hydrog WATSON-CRICK A DT 8 A O4 DT 8 1_555 A DA 3 A N6 DA 3 2_656 hydrog WATSON-CRICK A DG 9 A N1 DG 9 1_555 A DC 2 A N3 DC 2 2_656 hydrog WATSON-CRICK A DG 9 A N2 DG 9 1_555 A DC 2 A O2 DC 2 2_656 hydrog WATSON-CRICK A DG 9 A O6 DG 9 1_555 A DC 2 A N4 DC 2 2_656 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 A DC 1 A N3 DC 1 2_656 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 A DC 1 A O2 DC 1 2_656 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 A DC 1 A N4 DC 1 2_656 DNA divalent cations, DNA sequence-specific binding, shelxdna, B-DNA, DNA 1EN8 PDB 1 1EN8 1 10 1EN8 1 10 1EN8 A 1 1 10 BINDING SITE FOR RESIDUE CA A 111 A CA 111 Software 13 BINDING SITE FOR RESIDUE CA A 112 A CA 112 Software 7 BINDING SITE FOR RESIDUE CA A 113 A CA 113 Software 8 BINDING SITE FOR RESIDUE CA A 114 A CA 114 Software 8 BINDING SITE FOR RESIDUE EOH A 115 A EOH 115 Software 12 BINDING SITE FOR RESIDUE EOH A 228 A EOH 228 Software 9 BINDING SITE FOR RESIDUE EOH A 231 A EOH 231 Software 6 BINDING SITE FOR RESIDUE EOH A 207 A EOH 207 Software 5 A EOH 115 F EOH 13 1_555 A HOH 269 J HOH 13 1_555 A HOH 1058 J HOH 13 1_555 A HOH 1058 J HOH 13 2_657 A HOH 1059 J HOH 13 1_555 A HOH 1060 J HOH 13 1_555 A HOH 1061 J HOH 13 2_657 A HOH 1061 J HOH 13 1_555 A HOH 1062 J HOH 13 2_657 A HOH 1062 J HOH 13 1_555 A HOH 1063 J HOH 13 1_555 A HOH 1064 J HOH 13 2_657 A HOH 1064 J HOH 13 1_555 A HOH 1065 J HOH 7 1_555 A HOH 1066 J HOH 7 1_555 A HOH 1067 J HOH 7 1_555 A HOH 1068 J HOH 7 1_555 A HOH 1069 J HOH 7 1_555 A HOH 1070 J HOH 7 1_555 A HOH 1071 J HOH 7 1_555 A DG 9 A DG 9 8 1_555 A DG 10 A DG 10 8 1_555 A HOH 245 J HOH 8 1_555 A HOH 1072 J HOH 8 1_555 A HOH 1073 J HOH 8 1_555 A HOH 1074 J HOH 8 1_555 A HOH 1075 J HOH 8 1_555 A HOH 1076 J HOH 8 1_555 A DG 6 A DG 6 8 4_546 A DT 7 A DT 7 8 1_555 A HOH 241 J HOH 8 1_555 A HOH 252 J HOH 8 1_555 A HOH 1077 J HOH 8 1_555 A HOH 1078 J HOH 8 1_555 A HOH 1079 J HOH 8 1_555 A HOH 1080 J HOH 8 1_555 A DC 1 A DC 1 12 1_556 A DG 10 A DG 10 12 1_555 A CA 111 B CA 12 1_555 A HOH 199 J HOH 12 1_555 A HOH 200 J HOH 12 1_555 A HOH 202 J HOH 12 1_555 A HOH 269 J HOH 12 1_555 A HOH 1058 J HOH 12 2_657 A HOH 1060 J HOH 12 1_555 A HOH 1061 J HOH 12 1_555 A HOH 1061 J HOH 12 2_657 A HOH 1063 J HOH 12 1_555 A DT 7 A DT 7 9 2_656 A DT 8 A DT 8 9 2_656 A HOH 204 J HOH 9 1_555 A EOH 207 I EOH 9 1_555 A HOH 209 J HOH 9 1_555 A HOH 226 J HOH 9 2_656 A HOH 226 J HOH 9 1_555 A EOH 231 H EOH 9 1_555 A HOH 244 J HOH 9 1_555 A DA 3 A DA 3 6 3_545 A DA 4 A DA 4 6 3_545 A HOH 226 J HOH 6 1_555 A HOH 226 J HOH 6 2_656 A EOH 228 G EOH 6 1_555 A HOH 244 J HOH 6 1_555 A DA 4 A DA 4 5 3_545 A DC 5 A DC 5 5 3_545 A HOH 226 J HOH 5 1_555 A EOH 228 G EOH 5 1_555 A HOH 241 J HOH 5 2_656 5 monoclinic C 1 2 1