0.039006 0.000000 0.000000 0.000000 0.023942 0.000000 0.000000 0.000000 0.015626 0.00000 0.00000 0.00000 Spingler, B. Renciuk, D. Vorlickova, M. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 25.637 41.767 63.997 C10 H16 N3 O8 P 337.223 n 2'-deoxy-5-(hydroxymethyl)cytidine 5'-(dihydrogen phosphate) 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 C10 H15 N2 O8 P 322.208 y THYMIDINE-5'-MONOPHOSPHATE DNA linking H2 O 18.015 WATER non-polymer K 1 39.098 POTASSIUM ION non-polymer N 1 N P N 2 N O N 3 N O N 4 N O N 5 N C N 6 R C N 7 N O N 8 S C N 9 N O N 10 N C N 11 R C N 12 N N N 13 N C N 14 N O N 15 N N N 16 N C N 17 N N N 18 N C N 19 N C N 20 N O N 21 N C N 22 N O 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 H N 35 N H N 36 N H N 37 N H N 38 N H N 39 N O N 40 N P N 41 N O N 42 N O N 43 N O N 44 N C N 45 R C N 46 N O N 47 S C N 48 N O N 49 N C N 50 R 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 O N 76 N P N 77 N O N 78 N O N 79 N O N 80 N C N 81 R C N 82 N O N 83 S C N 84 N O N 85 N C N 86 R C N 87 N N N 88 N C N 89 N O N 90 N N N 91 N C N 92 N N N 93 N C N 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 Y 121 N N Y 122 N C Y 123 N N Y 124 N C N 125 N C N 126 N O N 127 N N N 128 N C N 129 N N N 130 N N Y 131 N C 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 H N 146 N O N 147 N P N 148 N O N 149 N O N 150 N O N 151 N C N 152 R C N 153 N O N 154 S C N 155 N O N 156 N C N 157 R C N 158 N N N 159 N C N 160 N O N 161 N N N 162 N C N 163 N O N 164 N C N 165 N C N 166 N C 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 O N 183 N H N 184 N H N 185 N K 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 sing N 10 N sing N 11 N sing N 12 N doub N 13 N sing N 14 N sing N 15 N doub N 16 N sing N 17 N doub 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 sing 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 sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing N 42 N doub 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 Y 63 N sing Y 64 N sing Y 65 N doub N 66 N sing Y 67 N sing Y 68 N sing Y 69 N doub N 70 N sing Y 71 N doub N 72 N sing N 73 N sing Y 74 N sing Y 75 N doub N 76 N sing Y 77 N sing N 78 N sing N 79 N sing N 80 N doub N 81 N sing N 82 N sing N 83 N sing N 84 N sing N 85 N sing N 86 N sing N 87 N sing N 88 N sing N 89 N sing N 90 N sing N 91 N sing N 92 N sing N 93 N sing N 94 N sing N 95 N sing N 96 N sing N 97 N sing N 98 N sing N 99 N sing N 100 N sing N 101 N sing N 102 N sing N 103 N doub 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 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 Y 136 N sing Y 137 N sing Y 138 N doub N 139 N sing Y 140 N sing N 141 N sing Y 142 N doub N 143 N doub N 144 N sing N 145 N sing N 146 N sing N 147 N sing N 148 N doub N 149 N sing 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 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 doub N 178 N sing N 179 N sing N 180 N sing N 181 N doub N 182 N sing N 183 N sing N 184 N doub N 185 N sing N 186 N sing N 187 N sing N 188 N sing N 189 N sing N 190 N sing UK Nucleic Acids Res. NARHAD 0389 0305-1048 41 9891 9900 10.1093/nar/gkt738 23963698 Crystal structures of B-DNA dodecamer containing the epigenetic modifications 5-hydroxymethylcytosine or 5-methylcytosine. 2013 10.2210/pdb4glh/pdb pdb_00004glh 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 100 1 PIXEL 2012-06-09 DECTRIS PILATUS 2M-F BARTELS MONOCHROMATOR SINGLE WAVELENGTH M x-ray 1 1.00067 1.0 X06DA SLS 1.00067 1.00067 SYNCHROTRON SLS BEAMLINE X06DA 3693.418 DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5HC)P*GP*CP*G)-3') 2 syn polymer 39.098 POTASSIUM ION 2 syn non-polymer 18.015 water 68 nat water no yes (DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(5HC)(DG)(DC)(DG) CGCGAATTXGCG A,B polydeoxyribonucleotide n n n n n n n n n n n n 1 2.32 46.96 VAPOR DIFFUSION, HANGING DROP 7.0 0.04M sodium cacodylate buffer, 0.08M potassium chloride, 0.012M sodium chloride, 0.012M spermine tetra hydrochloride, 37% MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K 298.0 -1.203 1 19 A 1 B 12 -0.237 A_DC1:DG12_B 1 -0.678 0.303 0.296 -0.208 6.391 1 19 A 2 B 11 -5.353 A_DG2:DC11_B 2 -15.892 -0.192 0.587 -0.297 -1.757 1 19 A 3 B 10 -1.532 A_DC3:DG10_B 3 0.879 0.148 0.063 -0.119 7.986 1 20 A 5 B 8 4.257 A_DA5:DT8_B 4 -19.396 0.079 0.014 -0.146 1.165 1 20 A 6 B 7 4.064 A_DA6:DT7_B 5 -19.548 0.049 0.158 -0.129 -1.362 1 20 A 7 B 6 4.136 A_DT7:DA6_B 6 -17.917 -0.038 0.217 -0.088 -5.056 1 20 A 8 B 5 4.360 A_DT8:DA5_B 7 -12.885 -0.106 0.175 -0.186 11.672 1 19 A 10 B 3 1.246 A_DG10:DC3_B 8 -3.475 -0.201 0.457 -0.098 4.298 1 19 A 11 B 2 -1.543 A_DC11:DG2_B 9 -20.035 0.179 0.293 -0.184 5.442 1 19 A 12 B 1 -5.068 A_DG12:DC1_B 10 -3.562 -0.218 0.178 -0.217 3.210 38.089 A A 1 2 -6.684 B B 12 11 3.167 -4.343 -0.870 0.166 AA_DC1DG2:DC11DG12_BB 1 -4.708 7.246 37.566 0.795 0.747 3.615 40.582 A A 2 3 -10.807 B B 11 10 3.612 -7.438 0.887 0.122 AA_DG2DC3:DG10DC11_BB 2 5.150 -7.483 39.602 1.104 -0.637 6.496 63.980 A A 3 5 3.141 B B 10 8 6.504 3.327 -0.508 -0.041 AA_DC3DA5:DT8DG10_BB 3 -0.159 0.150 63.902 -0.324 0.466 3.322 38.783 A A 5 6 0.167 B B 8 7 3.332 0.111 0.067 -0.214 AA_DA5DA6:DT7DT8_BB 4 -2.274 3.426 38.719 -0.336 -0.384 3.274 31.933 A A 6 7 -3.333 B B 7 6 3.247 -1.832 0.079 -0.574 AA_DA6DT7:DA6DT7_BB 5 -0.032 0.058 31.882 -0.711 -0.149 3.272 36.211 A A 7 8 -4.118 B B 6 5 3.252 -2.557 0.002 -0.420 AA_DT7DT8:DA5DA6_BB 6 0.761 -1.226 36.116 -0.317 0.104 6.231 67.710 A A 8 10 -3.203 B B 5 3 6.251 -3.568 0.030 0.229 AA_DT8DG10:DC3DA5_BB 7 -1.913 1.717 67.603 0.465 -0.166 3.419 43.728 A A 10 11 -13.130 B B 3 2 3.589 -9.705 -1.326 0.516 AA_DG10DC11:DG2DC3_BB 8 -0.722 0.977 42.684 1.699 1.705 3.382 34.999 A A 11 12 3.818 B B 2 1 3.336 2.294 0.598 0.514 AA_DC11DG12:DC1DG2_BB 9 1.299 -2.162 34.902 0.500 -0.793 chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_struct_conn_angle struct_conn struct_site repository Initial release Database references Database references Data collection Database references Derived calculations Refinement description 1 0 2013-08-28 1 1 2013-09-04 1 2 2013-12-04 1 3 2023-09-13 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_asym_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_seq_id _pdbx_struct_conn_angle.ptnr3_auth_asym_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_seq_id _pdbx_struct_conn_angle.value _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.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_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2012-08-14 REL REL K POTASSIUM ION HOH water 32630 Synthetic construct sample 1DPN PDB ENTRY 1DPN PDB experimental model K 51 2 K K 101 A K 52 2 K K 101 B HOH 104 3 HOH HOH 201 A HOH 105 3 HOH HOH 202 A HOH 108 3 HOH HOH 203 A HOH 112 3 HOH HOH 204 A HOH 116 3 HOH HOH 205 A HOH 118 3 HOH HOH 206 A HOH 123 3 HOH HOH 207 A HOH 124 3 HOH HOH 208 A HOH 127 3 HOH HOH 209 A HOH 128 3 HOH HOH 210 A HOH 129 3 HOH HOH 211 A HOH 131 3 HOH HOH 212 A HOH 132 3 HOH HOH 213 A HOH 133 3 HOH HOH 214 A HOH 134 3 HOH HOH 215 A HOH 135 3 HOH HOH 216 A HOH 137 3 HOH HOH 217 A HOH 138 3 HOH HOH 218 A HOH 139 3 HOH HOH 219 A HOH 140 3 HOH HOH 220 A HOH 145 3 HOH HOH 221 A HOH 146 3 HOH HOH 222 A HOH 150 3 HOH HOH 223 A HOH 152 3 HOH HOH 224 A HOH 153 3 HOH HOH 225 A HOH 156 3 HOH HOH 226 A HOH 157 3 HOH HOH 227 A HOH 159 3 HOH HOH 228 A HOH 160 3 HOH HOH 229 A HOH 162 3 HOH HOH 230 A HOH 164 3 HOH HOH 231 A HOH 166 3 HOH HOH 232 A HOH 167 3 HOH HOH 233 A HOH 168 3 HOH HOH 234 A HOH 101 3 HOH HOH 201 B HOH 102 3 HOH HOH 202 B HOH 103 3 HOH HOH 203 B HOH 106 3 HOH HOH 204 B HOH 107 3 HOH HOH 205 B HOH 109 3 HOH HOH 206 B HOH 110 3 HOH HOH 207 B HOH 111 3 HOH HOH 208 B HOH 113 3 HOH HOH 209 B HOH 114 3 HOH HOH 210 B HOH 115 3 HOH HOH 211 B HOH 117 3 HOH HOH 212 B HOH 119 3 HOH HOH 213 B HOH 120 3 HOH HOH 214 B HOH 121 3 HOH HOH 215 B HOH 122 3 HOH HOH 216 B HOH 125 3 HOH HOH 217 B HOH 126 3 HOH HOH 218 B HOH 130 3 HOH HOH 219 B HOH 136 3 HOH HOH 220 B HOH 141 3 HOH HOH 221 B HOH 142 3 HOH HOH 222 B HOH 143 3 HOH HOH 223 B HOH 144 3 HOH HOH 224 B HOH 147 3 HOH HOH 225 B HOH 148 3 HOH HOH 226 B HOH 149 3 HOH HOH 227 B HOH 151 3 HOH HOH 228 B HOH 154 3 HOH HOH 229 B HOH 155 3 HOH HOH 230 B HOH 158 3 HOH HOH 231 B HOH 161 3 HOH HOH 232 B HOH 163 3 HOH HOH 233 B HOH 165 3 HOH HOH 234 B DC 1 n 1 DC 1 A DG 2 n 2 DG 2 A DC 3 n 3 DC 3 A DG 4 n 4 DG 4 A DA 5 n 5 DA 5 A DA 6 n 6 DA 6 A DT 7 n 7 DT 7 A DT 8 n 8 DT 8 A 5HC 9 n 9 5HC 9 A DG 10 n 10 DG 10 A DC 11 n 11 DC 11 A DG 12 n 12 DG 12 A DC 1 n 1 DC 1 B DG 2 n 2 DG 2 B DC 3 n 3 DC 3 B DG 4 n 4 DG 4 B DA 5 n 5 DA 5 B DA 6 n 6 DA 6 B DT 7 n 7 DT 7 B DT 8 n 8 DT 8 B 5HC 9 n 9 5HC 9 B DG 10 n 10 DG 10 B DC 11 n 11 DC 11 B DG 12 n 12 DG 12 B 0.232 0.237 0.232 0.237 0.272 0.276 399 427 5.115 4.999 7800 author_and_software_defined_assembly PISA 2 dimeric 1480 -3 4490 A DT 7 A O2 DT 7 1_555 A K 101 C K K 1_555 A DT 8 A O4' DT 8 1_555 67.4 A DT 7 A O2 DT 7 1_555 A K 101 C K K 1_555 B DT 7 B O2 DT 7 1_555 84.6 A DT 8 A O4' DT 8 1_555 A K 101 C K K 1_555 B DT 7 B O2 DT 7 1_555 141.0 A DT 7 A O2 DT 7 1_555 A K 101 C K K 1_555 B DT 8 B O4' DT 8 1_555 134.2 A DT 8 A O4' DT 8 1_555 A K 101 C K K 1_555 B DT 8 B O4' DT 8 1_555 153.0 B DT 7 B O2 DT 7 1_555 A K 101 C K K 1_555 B DT 8 B O4' DT 8 1_555 65.4 A DT 7 A O2 DT 7 1_555 A K 101 C K K 1_555 B HOH 204 F O HOH 1_555 123.8 A DT 8 A O4' DT 8 1_555 A K 101 C K K 1_555 B HOH 204 F O HOH 1_555 79.8 B DT 7 B O2 DT 7 1_555 A K 101 C K K 1_555 B HOH 204 F O HOH 1_555 95.4 B DT 8 B O4' DT 8 1_555 A K 101 C K K 1_555 B HOH 204 F O HOH 1_555 94.1 A DT 7 A O2 DT 7 1_555 A K 101 C K K 1_555 B HOH 205 F O HOH 1_555 95.2 A DT 8 A O4' DT 8 1_555 A K 101 C K K 1_555 B HOH 205 F O HOH 1_555 94.1 B DT 7 B O2 DT 7 1_555 A K 101 C K K 1_555 B HOH 205 F O HOH 1_555 115.8 B DT 8 B O4' DT 8 1_555 A K 101 C K K 1_555 B HOH 205 F O HOH 1_555 70.6 B HOH 204 F O HOH 1_555 A K 101 C K K 1_555 B HOH 205 F O HOH 1_555 132.7 A DT 8 A O2 DT 8 1_555 B K 101 D K K 1_555 A 5HC 9 A O4' 5HC 9 1_555 62.8 A DT 8 A O2 DT 8 1_555 B K 101 D K K 1_555 B DT 7 B O4' DT 7 1_555 140.8 A 5HC 9 A O4' 5HC 9 1_555 B K 101 D K K 1_555 B DT 7 B O4' DT 7 1_555 156.3 A DT 8 A O2 DT 8 1_555 B K 101 D K K 1_555 B HOH 204 F O HOH 1_555 103.2 A 5HC 9 A O4' 5HC 9 1_555 B K 101 D K K 1_555 B HOH 204 F O HOH 1_555 102.0 B DT 7 B O4' DT 7 1_555 B K 101 D K K 1_555 B HOH 204 F O HOH 1_555 74.1 A DT 8 A O2 DT 8 1_555 B K 101 D K K 1_555 B HOH 208 F O HOH 1_555 119.2 A 5HC 9 A O4' 5HC 9 1_555 B K 101 D K K 1_555 B HOH 208 F O HOH 1_555 79.1 B DT 7 B O4' DT 7 1_555 B K 101 D K K 1_555 B HOH 208 F O HOH 1_555 86.1 B HOH 204 F O HOH 1_555 B K 101 D K K 1_555 B HOH 208 F O HOH 1_555 131.1 A 5HC 9 A 5HC 9 DC B 5HC 9 B 5HC 9 DC 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 -5.06 0.70 108.00 102.94 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 -6.37 0.80 102.40 96.03 A A A C3' C2' C1' DG DG DG 4 4 4 N 1 -5.18 0.70 108.00 102.82 A A A O4' C1' N9 DA DA DA 6 6 6 N 1 7.55 1.20 119.70 127.25 A A A C3' O3' P DT DT DT 7 7 8 Y 1 -5.70 0.70 108.00 102.30 A A A O4' C1' N1 DT DT DT 8 8 8 N 1 -4.95 0.80 102.40 97.45 A A A C3' C2' C1' DG DG DG 10 10 10 N 1 -7.44 0.70 108.00 100.56 A A A O4' C1' N1 DC DC DC 11 11 11 N 1 -5.34 0.70 108.00 102.66 A A A O4' C1' N9 DG DG DG 12 12 12 N 1 -3.60 0.60 128.60 125.00 A A A C5 C6 O6 DG DG DG 12 12 12 N 1 2.38 0.30 108.30 110.68 B B B O4' C1' N1 DC DC DC 1 1 1 N 1 2.79 0.30 108.30 111.09 B B B O4' C1' N9 DG DG DG 4 4 4 N 1 -5.51 0.70 108.00 102.49 B B B O4' C1' N9 DA DA DA 6 6 6 N 1 4.02 0.60 118.60 122.62 B B B C6 N1 C2 DA DA DA 6 6 6 N 1 -3.22 0.50 110.60 107.38 B B B C2 N3 C4 DA DA DA 6 6 6 N 1 -4.97 0.70 108.00 103.03 B B B O4' C1' N1 DT DT DT 7 7 7 N 1 9.42 1.40 114.30 123.72 B B B N1 C1' C2' DT DT DT 8 8 8 N 1 -8.65 0.70 108.00 99.35 B B B O4' C1' N1 DT DT DT 8 8 8 N 1 -6.71 0.80 102.40 95.69 B B B C3' C2' C1' DG DG DG 10 10 10 N 1 7.61 1.20 119.70 127.31 B B B C3' O3' P DC DC DG 11 11 12 Y ANISOTROPIC REFINEMENT REDUCED FREE R (NO CUTOFF) BY ? 0.276 0.237 0.237 1.662 41.78 4703 427 8542 7781 10869 4.999 99.7 RANDOM 1 FREE R 0.0 MOLECULAR REPLACEMENT PDB ENTRY 1DPN ENGH AND HUBER 0 0. 552.3 1.662 41.78 68 560 2 490 0 0.0087 0.0293 0.0000 0.0149 0.0000 0.0082 0.0080 0.0084 0.0267 0.0000 1.662 41.78 4GLH 8542 7781 4 2 0.025 0.0152 1 28.66 3.61 99.4 0.202 1.662 1.76 6.93 1 3.71 99.0 data collection RemDAq phasing PHASER refinement SHELXL-97 data reduction XDS data scaling XDS DNA dodecamer containing 5-hydroxymethyl cytosine 1 N N 1 N N 2 N N 2 N N 3 N N 3 N N covale 1.603 both A DT 8 A O3' DT 8 1_555 A 5HC 9 A P 5HC 9 1_555 covale 1.598 both A 5HC 9 A O3' 5HC 9 1_555 A DG 10 A P DG 10 1_555 covale 1.603 both B DT 8 B O3' DT 8 1_555 B 5HC 9 B P 5HC 9 1_555 covale 1.597 both B 5HC 9 B O3' 5HC 9 1_555 B DG 10 B P DG 10 1_555 metalc 2.677 A DT 7 A O2 DT 7 1_555 A K 101 C K K 1_555 metalc 3.116 A DT 8 A O4' DT 8 1_555 A K 101 C K K 1_555 metalc 2.708 A DT 8 A O2 DT 8 1_555 B K 101 D K K 1_555 metalc 3.177 A 5HC 9 A O4' 5HC 9 1_555 B K 101 D K K 1_555 metalc 2.703 A K 101 C K K 1_555 B DT 7 B O2 DT 7 1_555 metalc 3.291 A K 101 C K K 1_555 B DT 8 B O4' DT 8 1_555 metalc 2.877 A K 101 C K K 1_555 B HOH 204 F O HOH 1_555 metalc 2.775 A K 101 C K K 1_555 B HOH 205 F O HOH 1_555 metalc 3.295 B DT 7 B O4' DT 7 1_555 B K 101 D K K 1_555 metalc 2.899 B K 101 D K K 1_555 B HOH 204 F O HOH 1_555 metalc 2.889 B K 101 D K K 1_555 B HOH 208 F O HOH 1_555 hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 B DG 12 B N1 DG 12 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 B DG 12 B O6 DG 12 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 B DG 12 B N2 DG 12 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B DC 11 B N3 DC 11 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B DC 11 B O2 DC 11 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B DC 11 B N4 DC 11 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 B DG 10 B N1 DG 10 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 B DG 10 B O6 DG 10 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 B DG 10 B N2 DG 10 1_555 hydrog WATSON-CRICK A DA 5 A N1 DA 5 1_555 B DT 8 B N3 DT 8 1_555 hydrog WATSON-CRICK A DA 5 A N6 DA 5 1_555 B DT 8 B O4 DT 8 1_555 hydrog WATSON-CRICK A DA 6 A N1 DA 6 1_555 B DT 7 B N3 DT 7 1_555 hydrog WATSON-CRICK A DA 6 A N6 DA 6 1_555 B DT 7 B O4 DT 7 1_555 hydrog WATSON-CRICK A DT 7 A N3 DT 7 1_555 B DA 6 B N1 DA 6 1_555 hydrog WATSON-CRICK A DT 7 A O4 DT 7 1_555 B DA 6 B N6 DA 6 1_555 hydrog WATSON-CRICK A DT 8 A N3 DT 8 1_555 B DA 5 B N1 DA 5 1_555 hydrog WATSON-CRICK A DT 8 A O4 DT 8 1_555 B DA 5 B N6 DA 5 1_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 B DC 3 B N3 DC 3 1_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 B DC 3 B O2 DC 3 1_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 B DC 3 B N4 DC 3 1_555 hydrog WATSON-CRICK A DC 11 A N3 DC 11 1_555 B DG 2 B N1 DG 2 1_555 hydrog WATSON-CRICK A DC 11 A N4 DC 11 1_555 B DG 2 B O6 DG 2 1_555 hydrog WATSON-CRICK A DC 11 A O2 DC 11 1_555 B DG 2 B N2 DG 2 1_555 hydrog WATSON-CRICK A DG 12 A N1 DG 12 1_555 B DC 1 B N3 DC 1 1_555 hydrog WATSON-CRICK A DG 12 A N2 DG 12 1_555 B DC 1 B O2 DC 1 1_555 hydrog WATSON-CRICK A DG 12 A O6 DG 12 1_555 B DC 1 B N4 DC 1 1_555 DNA B-DNA dodecamer, epigenetics, 5-hydroxymethyl cytosine, DNA 4GLH PDB 1 4GLH 1 12 4GLH 1 12 4GLH A 1 1 12 1 12 4GLH 1 12 4GLH B 1 1 12 BINDING SITE FOR RESIDUE K A 101 A K 101 Software 6 BINDING SITE FOR RESIDUE K B 101 B K 101 Software 6 A DT 7 A DT 7 6 1_555 A DT 8 A DT 8 6 1_555 B DT 7 B DT 7 6 1_555 B DT 8 B DT 8 6 1_555 B HOH 204 F HOH 6 1_555 B HOH 205 F HOH 6 1_555 A DT 8 A DT 8 6 1_555 A 5HC 9 A 5HC 9 6 1_555 B DA 6 B DA 6 6 1_555 B DT 7 B DT 7 6 1_555 B HOH 204 F HOH 6 1_555 B HOH 208 F HOH 6 1_555 19 P 21 21 21