0.047733 0.000000 0.000000 0.000000 0.016166 0.000000 0.000000 0.000000 0.014601 0.00000 0.00000 0.00000 Gao, Y.-G. Robinson, H. Sanishvili, R. Joachimiak, A. Wang, A.H.-J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 16 90.00 90.00 90.00 20.950 61.860 68.490 C9 H12 Br N2 O8 P 387.078 n 5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE DNA linking 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 H2 O 18.015 WATER non-polymer Mg 2 24.305 MAGNESIUM ION non-polymer Na 1 22.990 SODIUM ION non-polymer C10 H26 N4 202.340 SPERMINE non-polymer N 1 N N N 2 N C N 3 N N N 4 N C N 5 N C N 6 N C N 7 N O N 8 N O N 9 N BR N 10 R C N 11 N C N 12 S C N 13 R C N 14 N O N 15 N O N 16 N C N 17 N O N 18 N P N 19 N O N 20 N O N 21 N O N 22 N H N 23 N H N 24 N H N 25 N H N 26 N H N 27 N H N 28 N H N 29 N H N 30 N H N 31 N H N 32 N H N 33 N H N 34 N O N 35 N P N 36 N O N 37 N O N 38 N O N 39 N C N 40 R C N 41 N O N 42 S C N 43 N O N 44 N C N 45 R C Y 46 N N Y 47 N C Y 48 N N Y 49 N C Y 50 N C N 51 N N Y 52 N N Y 53 N C Y 54 N N Y 55 N C N 56 N H N 57 N H N 58 N H N 59 N H N 60 N H N 61 N H N 62 N H N 63 N H N 64 N H N 65 N H N 66 N H N 67 N H N 68 N H N 69 N H N 70 N O N 71 N P N 72 N O N 73 N O N 74 N O N 75 N C N 76 R C N 77 N O N 78 S C N 79 N O N 80 N C N 81 R C N 82 N N N 83 N C N 84 N O N 85 N N N 86 N C N 87 N N N 88 N C N 89 N C 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 O N 105 N P N 106 N O N 107 N O N 108 N O N 109 N C N 110 R C N 111 N O N 112 S C N 113 N O N 114 N C N 115 R C Y 116 N N Y 117 N C Y 118 N N Y 119 N C N 120 N C N 121 N O N 122 N N N 123 N C N 124 N N N 125 N N Y 126 N C N 127 N H N 128 N H N 129 N H N 130 N H N 131 N H N 132 N H N 133 N H N 134 N H N 135 N H N 136 N H N 137 N H N 138 N H N 139 N H N 140 N H N 141 N O N 142 N H N 143 N H N 144 N MG N 145 N NA N 146 N N N 147 N C N 148 N C N 149 N C N 150 N N N 151 N C N 152 N C N 153 N C N 154 N C N 155 N N N 156 N C N 157 N C N 158 N C N 159 N N N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N H N 167 N H N 168 N H 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 H N 185 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N doub N 6 N sing N 7 N sing N 8 N sing N 9 N doub N 10 N doub 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 N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N doub N 31 N sing N 32 N sing N 33 N sing N 34 N sing N 35 N sing N 36 N sing N 37 N doub N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N sing N 43 N sing N 44 N sing N 45 N sing N 46 N sing N 47 N sing N 48 N sing N 49 N sing N 50 N sing N 51 N sing N 52 N sing N 53 N sing N 54 N sing N 55 N sing N 56 N sing N 57 N sing Y 58 N sing Y 59 N sing Y 60 N doub N 61 N sing Y 62 N sing Y 63 N sing Y 64 N doub N 65 N sing Y 66 N doub N 67 N sing N 68 N sing Y 69 N sing Y 70 N doub N 71 N sing Y 72 N sing N 73 N sing N 74 N sing N 75 N doub 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 doub N 99 N sing N 100 N doub 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 sing N 108 N sing N 109 N sing N 110 N doub N 111 N sing N 112 N sing N 113 N sing N 114 N sing N 115 N sing N 116 N sing N 117 N sing N 118 N sing N 119 N sing N 120 N sing N 121 N sing N 122 N sing N 123 N sing N 124 N sing N 125 N sing N 126 N sing N 127 N sing N 128 N sing N 129 N sing N 130 N sing Y 131 N sing Y 132 N sing Y 133 N doub N 134 N sing Y 135 N sing N 136 N sing Y 137 N doub N 138 N doub N 139 N sing N 140 N sing N 141 N sing N 142 N sing N 143 N doub N 144 N sing N 145 N sing N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N sing N 153 N sing N 154 N sing N 155 N sing N 156 N sing N 157 N sing N 158 N sing N 159 N sing N 160 N sing N 161 N sing N 162 N sing N 163 N sing N 164 N sing N 165 N sing N 166 N sing N 167 N sing N 168 N sing N 169 N sing N 170 N 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 US Biochemistry BICHAW 0033 0006-2960 38 16452 16460 10.1021/bi9914614 10600106 Structure and recognition of sheared tandem G x A base pairs associated with human centromere DNA sequence at atomic resolution. 1999 10.2210/pdb1dcr/pdb pdb_00001dcr 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 298 1 IMAGE PLATE 1996-06-17 RIGAKU RAXIS IIC SINGLE WAVELENGTH M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE RIGAKU RU200 3158.913 5'-D(*CP*CP*GP*AP*AP*(BRU)P*GP*AP*GP*G)-3' 2 syn polymer 202.340 SPERMINE 1 syn non-polymer 24.305 MAGNESIUM ION 3 syn non-polymer 22.990 SODIUM ION 1 syn non-polymer 18.015 water 87 nat water no yes (DC)(DC)(DG)(DA)(DA)(BRU)(DG)(DA)(DG)(DG) CCGAAUGAGG A,B polydeoxyribonucleotide n n n n n n n n n n 1 1.76 29.96 VAPOR DIFFUSION, SITTING DROP 7.5 MPD, MGCL2, TRIS, SPERMINE, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K 298 SPERMINE 1 MGCL2 1 TRIS 1 MPD 1 MPD 2 -3.185 1 19 A 2 B 19 -3.243 A_DC2:DG19_B 1 2.432 0.162 -0.101 -0.107 32.112 9 11 A 3 B 18 -3.230 A_DG3:DA18_B 2 4.379 6.718 0.530 -4.499 -34.108 9 11 A 4 B 17 4.071 A_DA4:DG17_B 3 -7.028 -6.564 0.543 -4.428 -1.458 1 20 A 5 B 16 0.694 A_DA5:BRU16_B 4 8.583 0.043 -0.209 -0.058 3.541 1 20 A 6 B 15 -1.053 A_BRU6:DA15_B 5 5.731 0.115 0.002 -0.066 40.713 9 11 A 7 B 14 6.863 A_DG7:DA14_B 6 -7.007 6.552 1.122 -4.081 -37.797 9 11 A 8 B 13 5.816 A_DA8:DG13_B 7 1.738 -6.531 0.760 -4.146 -2.291 1 19 A 9 B 12 -5.970 A_DG9:DC12_B 8 6.023 -0.235 -0.193 -0.200 -0.916 1 19 A 10 B 11 -5.662 A_DG10:DC11_B 9 -6.397 -0.078 0.092 -0.249 3.004 62.400 A A 2 3 2.418 B B 19 18 2.959 2.504 0.388 1.687 AA_DC2DG3:DA18DG19_BB 1 -2.238 2.161 62.319 1.524 -0.467 4.243 -8.233 A A 3 4 9.664 B B 18 17 4.946 -1.316 0.440 -1.071 AA_DG3DA4:DG17DA18_BB 2 -4.174 -30.650 -6.975 12.993 -14.479 3.149 66.343 A A 4 5 4.417 B B 17 16 3.031 4.830 -0.682 2.105 AA_DA4DA5:BRU16DG17_BB 3 1.175 -1.075 66.177 1.742 0.668 3.443 26.199 A A 5 6 -0.652 B B 16 15 3.449 -0.295 0.169 -0.531 AA_DA5BRU6:DA15BRU16_BB 4 -1.189 2.625 26.171 -1.088 -0.711 3.119 65.798 A A 6 7 5.703 B B 15 14 2.991 6.187 0.731 1.920 AA_BRU6DG7:DA14DA15_BB 5 -2.157 1.988 65.508 1.532 -0.755 2.190 -8.795 A A 7 8 47.759 B B 14 13 5.275 -6.241 -0.211 -1.274 AA_DG7DA8:DG13DA14_BB 6 3.654 27.959 -5.008 30.297 11.496 3.043 59.161 A A 8 9 6.061 B B 13 12 2.878 5.975 -0.163 1.962 AA_DA8DG9:DC12DG13_BB 7 1.156 -1.173 58.876 1.710 0.218 3.515 38.452 A A 9 10 10.971 B B 12 11 3.506 7.162 -0.752 -0.021 AA_DG9DG10:DC11DC12_BB 8 -5.621 8.611 37.398 -1.002 0.381 software chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_struct_conn_angle struct_conn struct_conn_type struct_site repository Initial release Version format compliance Version format compliance Refinement description Data collection Database references Derived calculations Refinement description 1 0 1999-11-19 1 1 2008-04-27 1 2 2011-07-13 1 3 2017-10-04 1 4 2023-08-09 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_symmetry _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 RCSB Y RCSB 1999-11-05 REL REL SPM SPERMINE MG MAGNESIUM ION NA SODIUM ION HOH water 1D9R PDB STRUCTURE 1D9R PDB experimental model SPM 24 2 SPM SPM 24 A MO5 21 3 MG MG 21 A MO5 22 3 MG MG 22 A NA 25 4 NA NA 25 B MO4 23 3 MG MG 23 B HOH 1004 5 HOH HOH 1004 A HOH 1005 5 HOH HOH 1005 A HOH 1006 5 HOH HOH 1006 A HOH 1011 5 HOH HOH 1011 A HOH 1012 5 HOH HOH 1012 A HOH 1013 5 HOH HOH 1013 A HOH 1015 5 HOH HOH 1015 A HOH 1017 5 HOH HOH 1017 A HOH 1018 5 HOH HOH 1018 A HOH 1021 5 HOH HOH 1021 A HOH 1023 5 HOH HOH 1023 A HOH 1026 5 HOH HOH 1026 A HOH 1030 5 HOH HOH 1030 A HOH 1031 5 HOH HOH 1031 A HOH 1034 5 HOH HOH 1034 A HOH 1036 5 HOH HOH 1036 A HOH 1037 5 HOH HOH 1037 A HOH 1038 5 HOH HOH 1038 A HOH 1041 5 HOH HOH 1041 A HOH 1042 5 HOH HOH 1042 A HOH 1045 5 HOH HOH 1045 A HOH 1046 5 HOH HOH 1046 A HOH 1048 5 HOH HOH 1048 A HOH 1050 5 HOH HOH 1050 A HOH 1051 5 HOH HOH 1051 A HOH 1052 5 HOH HOH 1052 A HOH 1054 5 HOH HOH 1054 A HOH 1055 5 HOH HOH 1055 A HOH 1058 5 HOH HOH 1058 A HOH 1059 5 HOH HOH 1059 A HOH 1060 5 HOH HOH 1060 A HOH 1061 5 HOH HOH 1061 A HOH 1063 5 HOH HOH 1063 A HOH 1064 5 HOH HOH 1064 A HOH 1065 5 HOH HOH 1065 A HOH 1069 5 HOH HOH 1069 A HOH 1072 5 HOH HOH 1072 A HOH 1073 5 HOH HOH 1073 A HOH 1074 5 HOH HOH 1074 A HOH 1075 5 HOH HOH 1075 A HOH 1076 5 HOH HOH 1076 A HOH 1077 5 HOH HOH 1077 A MO5 21 5 HOH HOH 1078 A MO5 21 5 HOH HOH 1079 A MO5 21 5 HOH HOH 1080 A MO5 21 5 HOH HOH 1081 A MO5 21 5 HOH HOH 1082 A MO5 22 5 HOH HOH 1083 A MO5 22 5 HOH HOH 1084 A MO5 22 5 HOH HOH 1085 A MO5 22 5 HOH HOH 1086 A MO5 22 5 HOH HOH 1087 A HOH 1001 5 HOH HOH 1001 B HOH 1003 5 HOH HOH 1003 B HOH 1007 5 HOH HOH 1007 B HOH 1008 5 HOH HOH 1008 B HOH 1009 5 HOH HOH 1009 B HOH 1010 5 HOH HOH 1010 B HOH 1014 5 HOH HOH 1014 B HOH 1016 5 HOH HOH 1016 B HOH 1019 5 HOH HOH 1019 B HOH 1020 5 HOH HOH 1020 B HOH 1022 5 HOH HOH 1022 B HOH 1024 5 HOH HOH 1024 B HOH 1025 5 HOH HOH 1025 B HOH 1027 5 HOH HOH 1027 B HOH 1028 5 HOH HOH 1028 B HOH 1032 5 HOH HOH 1032 B HOH 1033 5 HOH HOH 1033 B HOH 1039 5 HOH HOH 1039 B HOH 1040 5 HOH HOH 1040 B HOH 1043 5 HOH HOH 1043 B HOH 1044 5 HOH HOH 1044 B HOH 1047 5 HOH HOH 1047 B HOH 1049 5 HOH HOH 1049 B HOH 1053 5 HOH HOH 1053 B HOH 1056 5 HOH HOH 1056 B HOH 1062 5 HOH HOH 1062 B HOH 1066 5 HOH HOH 1066 B HOH 1067 5 HOH HOH 1067 B HOH 1068 5 HOH HOH 1068 B HOH 1070 5 HOH HOH 1070 B HOH 1071 5 HOH HOH 1071 B MO4 23 5 HOH HOH 1088 B MO4 23 5 HOH HOH 1089 B MO4 23 5 HOH HOH 1090 B MO4 23 5 HOH HOH 1091 B C 1 n 1 DC 1 A C 2 n 2 DC 2 A G 3 n 3 DG 3 A A 4 n 4 DA 4 A A 5 n 5 DA 5 A +U 6 n 6 BRU 6 A G 7 n 7 DG 7 A A 8 n 8 DA 8 A G 9 n 9 DG 9 A G 10 n 10 DG 10 A C 11 n 1 DC 11 B C 12 n 2 DC 12 B G 13 n 3 DG 13 B A 14 n 4 DA 14 B A 15 n 5 DA 15 B +U 16 n 6 BRU 16 B G 17 n 7 DG 17 B A 18 n 8 DA 18 B G 19 n 9 DG 19 B G 20 n 10 DG 20 B 0.192 0.187 0.261 278 5 5409 author_defined_assembly 2 dimeric A DG 9 A N7 DG 9 1_555 A MG 22 E MG MG 1_555 A HOH 1083 H O HOH 1_555 87.2 A DG 9 A N7 DG 9 1_555 A MG 22 E MG MG 1_555 A HOH 1084 H O HOH 1_555 94.5 A HOH 1083 H O HOH 1_555 A MG 22 E MG MG 1_555 A HOH 1084 H O HOH 1_555 178.0 A DG 9 A N7 DG 9 1_555 A MG 22 E MG MG 1_555 A HOH 1085 H O HOH 1_555 84.6 A HOH 1083 H O HOH 1_555 A MG 22 E MG MG 1_555 A HOH 1085 H O HOH 1_555 90.1 A HOH 1084 H O HOH 1_555 A MG 22 E MG MG 1_555 A HOH 1085 H O HOH 1_555 90.9 A DG 9 A N7 DG 9 1_555 A MG 22 E MG MG 1_555 A HOH 1086 H O HOH 1_555 172.8 A HOH 1083 H O HOH 1_555 A MG 22 E MG MG 1_555 A HOH 1086 H O HOH 1_555 89.7 A HOH 1084 H O HOH 1_555 A MG 22 E MG MG 1_555 A HOH 1086 H O HOH 1_555 88.7 A HOH 1085 H O HOH 1_555 A MG 22 E MG MG 1_555 A HOH 1086 H O HOH 1_555 88.9 A DG 9 A N7 DG 9 1_555 A MG 22 E MG MG 1_555 A HOH 1087 H O HOH 1_555 97.0 A HOH 1083 H O HOH 1_555 A MG 22 E MG MG 1_555 A HOH 1087 H O HOH 1_555 90.4 A HOH 1084 H O HOH 1_555 A MG 22 E MG MG 1_555 A HOH 1087 H O HOH 1_555 88.5 A HOH 1085 H O HOH 1_555 A MG 22 E MG MG 1_555 A HOH 1087 H O HOH 1_555 178.3 A HOH 1086 H O HOH 1_555 A MG 22 E MG MG 1_555 A HOH 1087 H O HOH 1_555 89.5 A DG 10 A OP1 DG 10 1_555 A MG 21 D MG MG 1_555 A HOH 1078 H O HOH 1_555 93.5 A DG 10 A OP1 DG 10 1_555 A MG 21 D MG MG 1_555 A HOH 1079 H O HOH 1_555 85.2 A HOH 1078 H O HOH 1_555 A MG 21 D MG MG 1_555 A HOH 1079 H O HOH 1_555 178.4 A DG 10 A OP1 DG 10 1_555 A MG 21 D MG MG 1_555 A HOH 1080 H O HOH 1_555 91.8 A HOH 1078 H O HOH 1_555 A MG 21 D MG MG 1_555 A HOH 1080 H O HOH 1_555 88.4 A HOH 1079 H O HOH 1_555 A MG 21 D MG MG 1_555 A HOH 1080 H O HOH 1_555 90.6 A DG 10 A OP1 DG 10 1_555 A MG 21 D MG MG 1_555 A HOH 1081 H O HOH 1_555 175.7 A HOH 1078 H O HOH 1_555 A MG 21 D MG MG 1_555 A HOH 1081 H O HOH 1_555 90.8 A HOH 1079 H O HOH 1_555 A MG 21 D MG MG 1_555 A HOH 1081 H O HOH 1_555 90.6 A HOH 1080 H O HOH 1_555 A MG 21 D MG MG 1_555 A HOH 1081 H O HOH 1_555 88.8 A DG 10 A OP1 DG 10 1_555 A MG 21 D MG MG 1_555 A HOH 1082 H O HOH 1_555 89.6 A HOH 1078 H O HOH 1_555 A MG 21 D MG MG 1_555 A HOH 1082 H O HOH 1_555 90.9 A HOH 1079 H O HOH 1_555 A MG 21 D MG MG 1_555 A HOH 1082 H O HOH 1_555 90.1 A HOH 1080 H O HOH 1_555 A MG 21 D MG MG 1_555 A HOH 1082 H O HOH 1_555 178.5 A HOH 1081 H O HOH 1_555 A MG 21 D MG MG 1_555 A HOH 1082 H O HOH 1_555 89.8 B BRU 16 B OP1 BRU 6 1_555 B NA 25 F NA NA 1_555 B BRU 16 B O5' BRU 6 1_555 35.5 B BRU 16 B OP1 BRU 6 1_555 B NA 25 F NA NA 1_555 B BRU 16 B OP2 BRU 6 1_555 33.3 B BRU 16 B O5' BRU 6 1_555 B NA 25 F NA NA 1_555 B BRU 16 B OP2 BRU 6 1_555 62.1 B BRU 16 B OP1 BRU 6 1_555 B NA 25 F NA NA 1_555 B HOH 1014 I O HOH 1_555 140.1 B BRU 16 B O5' BRU 6 1_555 B NA 25 F NA NA 1_555 B HOH 1014 I O HOH 1_555 126.9 B BRU 16 B OP2 BRU 6 1_555 B NA 25 F NA NA 1_555 B HOH 1014 I O HOH 1_555 156.8 B DG 20 B OP1 DG 10 1_555 B MG 23 G MG MG 1_555 B DG 20 B OP1 DG 10 3_555 175.6 B DG 20 B OP1 DG 10 1_555 B MG 23 G MG MG 1_555 B HOH 1088 I O HOH 1_555 99.4 B DG 20 B OP1 DG 10 3_555 B MG 23 G MG MG 1_555 B HOH 1088 I O HOH 1_555 80.6 B DG 20 B OP1 DG 10 1_555 B MG 23 G MG MG 1_555 B HOH 1088 I O HOH 3_555 80.6 B DG 20 B OP1 DG 10 3_555 B MG 23 G MG MG 1_555 B HOH 1088 I O HOH 3_555 99.4 B HOH 1088 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1088 I O HOH 3_555 179.6 B DG 20 B OP1 DG 10 1_555 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 1_555 80.6 B DG 20 B OP1 DG 10 3_555 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 1_555 99.4 B HOH 1088 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 1_555 179.6 B HOH 1088 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 1_555 0.0 B DG 20 B OP1 DG 10 1_555 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 3_555 99.4 B DG 20 B OP1 DG 10 3_555 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 3_555 80.6 B HOH 1088 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 3_555 0.0 B HOH 1088 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 3_555 179.6 B HOH 1089 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 3_555 179.6 B DG 20 B OP1 DG 10 1_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 1_555 92.2 B DG 20 B OP1 DG 10 3_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 1_555 92.2 B HOH 1088 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 1_555 90.2 B HOH 1088 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 1_555 90.2 B HOH 1089 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 1_555 90.2 B HOH 1089 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 1_555 90.2 B DG 20 B OP1 DG 10 1_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 3_555 92.2 B DG 20 B OP1 DG 10 3_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 3_555 92.2 B HOH 1088 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 3_555 90.2 B HOH 1088 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 3_555 90.2 B HOH 1089 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 3_555 90.2 B HOH 1089 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 3_555 90.2 B HOH 1090 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 3_555 0.0 B DG 20 B OP1 DG 10 1_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 1_555 87.8 B DG 20 B OP1 DG 10 3_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 1_555 87.8 B HOH 1088 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 1_555 89.8 B HOH 1088 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 1_555 89.8 B HOH 1089 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 1_555 89.8 B HOH 1089 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 1_555 89.8 B HOH 1090 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 1_555 180.0 B HOH 1090 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 1_555 180.0 B DG 20 B OP1 DG 10 1_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 3_555 87.8 B DG 20 B OP1 DG 10 3_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 3_555 87.8 B HOH 1088 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 3_555 89.8 B HOH 1088 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 3_555 89.8 B HOH 1089 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 3_555 89.8 B HOH 1089 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 3_555 89.8 B HOH 1090 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 3_555 180.0 B HOH 1090 I O HOH 3_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 3_555 179.9 B HOH 1091 I O HOH 1_555 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 3_555 0.0 A BRU 6 A BRU 6 DU B BRU 16 B BRU 6 DU 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 MG 23 G MG 1 A HOH 1042 H HOH 1 B HOH 1024 I HOH 1 B HOH 1070 I HOH 1 B HOH 1090 I HOH 1 B HOH 1091 I HOH 1 A DA 8 0.094 SIDE CHAIN 1 B DC 11 0.087 SIDE CHAIN 1 B DA 14 0.069 SIDE CHAIN 1 11.55 1.20 119.70 131.25 A A A C3' O3' P BRU BRU DG 6 6 7 Y 1 -6.91 0.90 105.70 98.79 A A A O5' P OP2 DG DG DG 7 7 7 N 1 -4.44 0.70 108.00 103.56 A A A O4' C1' N9 DG DG DG 7 7 7 N 1 4.54 0.30 108.30 112.84 A A A O4' C1' N9 DG DG DG 9 9 9 N 1 6.38 0.30 108.30 114.68 B B B O4' C1' N1 DC DC DC 11 11 11 N 1 3.98 0.30 108.30 112.28 B B B O4' C1' N9 DA DA DA 14 14 14 N 1 3.05 0.50 117.70 120.75 B B B C5 C6 N1 DA DA DA 15 15 15 N 1 -5.19 0.50 129.30 124.11 B B B N1 C2 N3 DA DA DA 18 18 18 N 1 4.90 0.60 118.60 123.50 B B B N1 C6 N6 DA DA DA 18 18 18 N SHELX-97 OPTIONS HOPE 0.266 0.196 0.191 1.60 20.0 2055 291 5771 5409 1837 5 98.4 RANDOM 1 THROUGHOUT 0.0 0.0 MOLECULAR REPLACEMENT PDB STRUCTURE 1D9R PARKINSON ET AL. SHELX-97 OPTIONS SWAT 1.60 20.0 77 523 34 412 0 0.009 0.025 0.067 0.072 0.066 32.7 1.60 20.0 1DCR 5771 5771 0 0 0.075 1 19.2 2.61 94.8 0.445 1.60 1.66 3.80 2.10 93.7 model building X-PLOR refinement SHELXL-97 data scaling d*TREK phasing X-PLOR CRYSTAL STRUCTURE OF DNA SHEARED TANDEM G-A BASE PAIRS 1 N N 1 N N 2 N N 3 N N 3 N N 4 N N 3 N N 5 N N 5 N N covale 1.609 both A DA 5 A O3' DA 5 1_555 A BRU 6 A P BRU 6 1_555 covale 1.576 both A BRU 6 A O3' BRU 6 1_555 A DG 7 A P DG 7 1_555 covale 1.619 both B DA 15 B O3' DA 5 1_555 B BRU 16 B P BRU 6 1_555 covale 1.597 both B BRU 16 B O3' BRU 6 1_555 B DG 17 B P DG 7 1_555 metalc 2.307 A DG 9 A N7 DG 9 1_555 A MG 22 E MG MG 1_555 metalc 2.117 A DG 10 A OP1 DG 10 1_555 A MG 21 D MG MG 1_555 metalc 2.061 A MG 21 D MG MG 1_555 A HOH 1078 H O HOH 1_555 metalc 2.055 A MG 21 D MG MG 1_555 A HOH 1079 H O HOH 1_555 metalc 2.068 A MG 21 D MG MG 1_555 A HOH 1080 H O HOH 1_555 metalc 2.061 A MG 21 D MG MG 1_555 A HOH 1081 H O HOH 1_555 metalc 2.059 A MG 21 D MG MG 1_555 A HOH 1082 H O HOH 1_555 metalc 2.056 A MG 22 E MG MG 1_555 A HOH 1083 H O HOH 1_555 metalc 2.069 A MG 22 E MG MG 1_555 A HOH 1084 H O HOH 1_555 metalc 2.069 A MG 22 E MG MG 1_555 A HOH 1085 H O HOH 1_555 metalc 2.067 A MG 22 E MG MG 1_555 A HOH 1086 H O HOH 1_555 metalc 2.063 A MG 22 E MG MG 1_555 A HOH 1087 H O HOH 1_555 metalc 4.103 B BRU 16 B OP1 BRU 6 1_555 B NA 25 F NA NA 1_555 metalc 2.542 B BRU 16 B O5' BRU 6 1_555 B NA 25 F NA NA 1_555 metalc 2.104 B BRU 16 B OP2 BRU 6 1_555 B NA 25 F NA NA 1_555 metalc 2.029 B DG 20 B OP1 DG 10 1_555 B MG 23 G MG MG 1_555 metalc 2.028 B DG 20 B OP1 DG 10 3_555 B MG 23 G MG MG 1_555 metalc 2.056 B MG 23 G MG MG 1_555 B HOH 1088 I O HOH 1_555 metalc 2.057 B MG 23 G MG MG 1_555 B HOH 1088 I O HOH 3_555 metalc 2.057 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 1_555 metalc 2.056 B MG 23 G MG MG 1_555 B HOH 1089 I O HOH 3_555 metalc 2.062 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 1_555 metalc 2.062 B MG 23 G MG MG 1_555 B HOH 1090 I O HOH 3_555 metalc 2.062 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 1_555 metalc 2.062 B MG 23 G MG MG 1_555 B HOH 1091 I O HOH 3_555 metalc 2.908 B NA 25 F NA NA 1_555 B HOH 1014 I O HOH 1_555 hydrog WATSON-CRICK A DC 2 A N3 DC 2 1_555 B DG 19 B N1 DG 9 1_555 hydrog WATSON-CRICK A DC 2 A N4 DC 2 1_555 B DG 19 B O6 DG 9 1_555 hydrog WATSON-CRICK A DC 2 A O2 DC 2 1_555 B DG 19 B N2 DG 9 1_555 hydrog TYPE_11_PAIR A DG 3 A N2 DG 3 1_555 B DA 18 B N7 DA 8 1_555 hydrog TYPE_11_PAIR A DG 3 A N3 DG 3 1_555 B DA 18 B N6 DA 8 1_555 hydrog TYPE_11_PAIR A DA 4 A N6 DA 4 1_555 B DG 17 B N3 DG 7 1_555 hydrog TYPE_11_PAIR A DA 4 A N7 DA 4 1_555 B DG 17 B N2 DG 7 1_555 hydrog WATSON-CRICK A DA 5 A N1 DA 5 1_555 B BRU 16 B N3 BRU 6 1_555 hydrog WATSON-CRICK A DA 5 A N6 DA 5 1_555 B BRU 16 B O4 BRU 6 1_555 hydrog WATSON-CRICK A BRU 6 A N3 BRU 6 1_555 B DA 15 B N1 DA 5 1_555 hydrog WATSON-CRICK A BRU 6 A O4 BRU 6 1_555 B DA 15 B N6 DA 5 1_555 hydrog TYPE_11_PAIR A DG 7 A N2 DG 7 1_555 B DA 14 B N7 DA 4 1_555 hydrog TYPE_11_PAIR A DG 7 A N3 DG 7 1_555 B DA 14 B N6 DA 4 1_555 hydrog TYPE_11_PAIR A DA 8 A N6 DA 8 1_555 B DG 13 B N3 DG 3 1_555 hydrog TYPE_11_PAIR A DA 8 A N7 DA 8 1_555 B DG 13 B N2 DG 3 1_555 hydrog WATSON-CRICK A DG 9 A N1 DG 9 1_555 B DC 12 B N3 DC 2 1_555 hydrog WATSON-CRICK A DG 9 A N2 DG 9 1_555 B DC 12 B O2 DC 2 1_555 hydrog WATSON-CRICK A DG 9 A O6 DG 9 1_555 B DC 12 B N4 DC 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 TANDEM GA BASE PAIRS, GA MISMATCH, DEOXYRIBONUCLEIC ACID, DNA 1DCR PDB 1 1DCR 1 10 1DCR 1 10 1DCR A 1 1 10 11 20 1DCR 11 20 1DCR B 1 1 10 BINDING SITE FOR RESIDUE SPM A 24 A SPM 24 Software 10 BINDING SITE FOR RESIDUE NA B 25 B NA 25 Software 3 BINDING SITE FOR RESIDUE MG A 21 A MG 21 Software 6 BINDING SITE FOR RESIDUE MG A 22 A MG 22 Software 6 BINDING SITE FOR RESIDUE MG B 23 B MG 23 Software 10 A DG 7 A DG 7 10 1_555 A DG 7 A DG 7 10 3_655 A HOH 1069 H HOH 10 1_555 A HOH 1069 H HOH 10 3_655 B DC 12 B DC 2 10 3_655 B DC 12 B DC 2 10 1_555 B DG 13 B DG 3 10 1_555 B DG 13 B DG 3 10 3_655 B HOH 1056 I HOH 10 3_655 B HOH 1056 I HOH 10 1_555 B DA 15 B DA 5 3 1_555 B BRU 16 B BRU 6 3 1_555 B HOH 1014 I HOH 3 1_555 A DG 10 A DG 10 6 1_555 A HOH 1078 H HOH 6 1_555 A HOH 1079 H HOH 6 1_555 A HOH 1080 H HOH 6 1_555 A HOH 1081 H HOH 6 1_555 A HOH 1082 H HOH 6 1_555 A DG 9 A DG 9 6 1_555 A HOH 1083 H HOH 6 1_555 A HOH 1084 H HOH 6 1_555 A HOH 1085 H HOH 6 1_555 A HOH 1086 H HOH 6 1_555 A HOH 1087 H HOH 6 1_555 B DG 20 B DG 10 10 1_555 B DG 20 B DG 10 10 3_555 B HOH 1088 I HOH 10 1_555 B HOH 1088 I HOH 10 3_555 B HOH 1089 I HOH 10 3_555 B HOH 1089 I HOH 10 1_555 B HOH 1090 I HOH 10 1_555 B HOH 1090 I HOH 10 3_555 B HOH 1091 I HOH 10 3_555 B HOH 1091 I HOH 10 1_555 20 orthorhombic C 2 2 21