0.047210 -0.000000 0.000000 0.000000 0.035257 0.000000 0.000000 0.000000 0.022502 0.00000 0.00000 0.00000 Thiyagarajan, S. Satheesh Kumar, P. Rajan, S.S. Gautham, N. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 21.182 28.363 44.440 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 N 18 N N Y 19 N N Y 20 N C Y 21 N N Y 22 N C 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 O N 38 N P N 39 N O N 40 N O N 41 N O N 42 N C N 43 R C N 44 N O N 45 S C N 46 N O N 47 N C N 48 R C N 49 N N N 50 N C N 51 N O N 52 N N N 53 N C N 54 N N N 55 N C N 56 N C 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 H N 71 N O N 72 N P N 73 N O N 74 N O N 75 N O N 76 N C N 77 R C N 78 N O N 79 S C N 80 N O N 81 N C N 82 R C Y 83 N N Y 84 N C Y 85 N N Y 86 N C N 87 N C N 88 N O N 89 N N N 90 N C N 91 N N N 92 N N Y 93 N C 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 H N 105 N H N 106 N H N 107 N H N 108 N O N 109 N P N 110 N O N 111 N O N 112 N O N 113 N C N 114 R C N 115 N O N 116 S C N 117 N O N 118 N C N 119 R C N 120 N N N 121 N C N 122 N O N 123 N N N 124 N C N 125 N O N 126 N C N 127 N C N 128 N C 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 H N 142 N H N 143 N H N 144 N O N 145 N H N 146 N H N 147 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 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 DK Acta Crystallogr.,Sect.D ABCRE6 0766 0907-4449 58 1381 1384 10.1107/S090744490200896X 12136163 Structure of d(TGCGCA)2 at 293 K: comparison of the effects of sequence and temperature. 2002 10.2210/pdb1ljx/pdb pdb_00001ljx SEVERAL CHIRALITY ERRORS 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 293 1 FRANK AREA DETECTOR 1998-04-15 MARRESEARCH SINGLE WAVELENGTH M x-ray 1 1.5418 1.0 1.5418 ROTATING ANODE RIGAKU RU200 1809.218 5'-D(*TP*GP*CP*GP*CP*A)-3' 2 syn polymer 24.305 MAGNESIUM ION 2 syn non-polymer 18.015 water 58 nat water no no (DT)(DG)(DC)(DG)(DC)(DA) TGCGCA A,B polydeoxyribonucleotide n n n n n n 1 1.84 33.32 VAPOR DIFFUSION, HANGING DROP 7.0 cacodylate, MgCl2, cobalt hexaamine chloride, MPD, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K 293 cacodylate 1 MgCl2 1 cobalt hexaamine chloride 1 MPD 1 8.125 1 20 A 1 B 12 -2.191 A_DT1:DA12_B 1 0.864 -0.181 0.049 -0.129 0.338 1 19 A 2 B 11 0.019 A_DG2:DC11_B 2 2.851 0.174 0.282 -0.127 -0.651 1 19 A 3 B 10 1.743 A_DC3:DG10_B 3 1.280 -0.082 0.321 -0.069 -3.865 1 19 A 4 B 9 1.120 A_DG4:DC9_B 4 0.556 0.197 0.108 -0.072 7.322 1 19 A 5 B 8 1.281 A_DC5:DG8_B 5 -3.475 -0.179 0.026 -0.109 -6.303 1 20 A 6 B 7 -1.697 A_DA6:DT7_B 6 0.776 0.059 0.142 -0.105 4.330 -14.256 A A 1 2 5.231 B B 12 11 3.875 -1.294 0.138 5.607 AA_DT1DG2:DC11DA12_BB 1 1.503 6.075 -14.118 -21.093 2.297 3.576 -53.165 A A 2 3 -0.945 B B 11 10 3.568 0.845 -0.129 -0.720 AA_DG2DC3:DG10DC11_BB 2 -0.745 -0.832 -53.154 0.745 -0.195 3.989 -9.317 A A 3 4 2.724 B B 10 9 3.743 -0.442 0.052 5.271 AA_DC3DG4:DC9DG10_BB 3 -0.252 -1.554 -9.303 -31.325 -0.320 3.061 -48.577 A A 4 5 6.009 B B 9 8 3.201 -4.936 0.006 -1.305 AA_DG4DC5:DG8DC9_BB 4 0.760 0.925 -48.336 1.951 0.063 6.017 -11.184 A A 5 6 32.148 B B 8 7 3.821 -5.908 -0.128 5.348 AA_DC5DA6:DT7DG8_BB 5 1.998 10.869 -9.288 -12.909 4.258 software chem_comp_atom chem_comp_bond database_2 pdbx_initial_refinement_model pdbx_struct_conn_angle struct_conn struct_site repository Initial release Version format compliance Version format compliance Refinement description Data collection Database references Derived calculations Refinement description 1 0 2002-05-03 1 1 2008-04-28 1 2 2011-07-13 1 3 2017-10-11 1 4 2023-08-16 _software.classification _software.name _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.pdbx_dist_value _struct_conn.ptnr2_auth_seq_id _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 2002-04-23 REL REL MG MAGNESIUM ION HOH water 1DCG PDB entry 1DCG with its terminal bases modified PDB experimental model MG 19 2 MG MG 19 A MG 18 2 MG MG 18 B HOH 14 3 HOH HOH 14 A HOH 17 3 HOH HOH 17 A HOH 20 3 HOH HOH 20 A HOH 22 3 HOH HOH 22 A HOH 23 3 HOH HOH 23 A HOH 24 3 HOH HOH 24 A HOH 25 3 HOH HOH 25 A HOH 26 3 HOH HOH 26 A HOH 30 3 HOH HOH 30 A HOH 36 3 HOH HOH 36 A HOH 38 3 HOH HOH 38 A HOH 39 3 HOH HOH 39 A HOH 40 3 HOH HOH 40 A HOH 44 3 HOH HOH 44 A HOH 51 3 HOH HOH 51 A HOH 55 3 HOH HOH 55 A HOH 56 3 HOH HOH 56 A HOH 59 3 HOH HOH 59 A HOH 63 3 HOH HOH 63 A HOH 67 3 HOH HOH 67 A HOH 13 3 HOH HOH 13 B HOH 15 3 HOH HOH 15 B HOH 16 3 HOH HOH 16 B HOH 21 3 HOH HOH 21 B HOH 27 3 HOH HOH 27 B HOH 28 3 HOH HOH 28 B HOH 29 3 HOH HOH 29 B HOH 31 3 HOH HOH 31 B HOH 32 3 HOH HOH 32 B HOH 33 3 HOH HOH 33 B HOH 34 3 HOH HOH 34 B HOH 35 3 HOH HOH 35 B HOH 37 3 HOH HOH 37 B HOH 41 3 HOH HOH 41 B HOH 42 3 HOH HOH 42 B HOH 43 3 HOH HOH 43 B HOH 45 3 HOH HOH 45 B HOH 46 3 HOH HOH 46 B HOH 47 3 HOH HOH 47 B HOH 48 3 HOH HOH 48 B HOH 49 3 HOH HOH 49 B HOH 50 3 HOH HOH 50 B HOH 52 3 HOH HOH 52 B HOH 53 3 HOH HOH 53 B HOH 54 3 HOH HOH 54 B HOH 57 3 HOH HOH 57 B HOH 58 3 HOH HOH 58 B HOH 60 3 HOH HOH 60 B HOH 61 3 HOH HOH 61 B HOH 62 3 HOH HOH 62 B HOH 64 3 HOH HOH 64 B HOH 65 3 HOH HOH 65 B HOH 66 3 HOH HOH 66 B HOH 68 3 HOH HOH 68 B HOH 69 3 HOH HOH 69 B HOH 70 3 HOH HOH 70 B HOH 71 3 HOH HOH 71 B HOH 72 3 HOH HOH 72 B T 1 n 1 DT 1 A G 2 n 2 DG 2 A C 3 n 3 DC 3 A G 4 n 4 DG 4 A C 5 n 5 DC 5 A A 6 n 6 DA 6 A T 7 n 1 DT 7 B G 8 n 2 DG 8 B C 9 n 3 DC 9 B G 10 n 4 DG 10 B C 11 n 5 DC 11 B A 12 n 6 DA 12 B author_defined_assembly 2 dimeric A HOH 23 E O HOH 1_555 A MG 19 C MG MG 1_555 A HOH 24 E O HOH 1_555 144.1 A HOH 23 E O HOH 1_555 A MG 19 C MG MG 1_555 A HOH 25 E O HOH 1_555 97.7 A HOH 24 E O HOH 1_555 A MG 19 C MG MG 1_555 A HOH 25 E O HOH 1_555 88.0 A HOH 23 E O HOH 1_555 A MG 19 C MG MG 1_555 A HOH 63 E O HOH 1_555 79.6 A HOH 24 E O HOH 1_555 A MG 19 C MG MG 1_555 A HOH 63 E O HOH 1_555 97.9 A HOH 25 E O HOH 1_555 A MG 19 C MG MG 1_555 A HOH 63 E O HOH 1_555 173.1 B HOH 34 F O HOH 1_555 B MG 18 D MG MG 1_555 B HOH 43 F O HOH 1_555 71.7 B HOH 34 F O HOH 1_555 B MG 18 D MG MG 1_555 B HOH 46 F O HOH 1_555 97.5 B HOH 43 F O HOH 1_555 B MG 18 D MG MG 1_555 B HOH 46 F O HOH 1_555 148.8 B HOH 34 F O HOH 1_555 B MG 18 D MG MG 1_555 B HOH 49 F O HOH 1_555 99.9 B HOH 43 F O HOH 1_555 B MG 18 D MG MG 1_555 B HOH 49 F O HOH 1_555 113.9 B HOH 46 F O HOH 1_555 B MG 18 D MG MG 1_555 B HOH 49 F O HOH 1_555 96.6 B HOH 34 F O HOH 1_555 B MG 18 D MG MG 1_555 B HOH 68 F O HOH 1_555 83.1 B HOH 43 F O HOH 1_555 B MG 18 D MG MG 1_555 B HOH 68 F O HOH 1_555 70.1 B HOH 46 F O HOH 1_555 B MG 18 D MG MG 1_555 B HOH 68 F O HOH 1_555 79.7 B HOH 49 F O HOH 1_555 B MG 18 D MG MG 1_555 B HOH 68 F O HOH 1_555 175.5 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 0.0000000000 0.0000000000 0.0000000000 1.0000000000 1_555 x,y,z identity operation 0.0000000000 0.0000000000 0.0000000000 1 A C4' DG 4 PLANAR 1 B C4' DG 8 PLANAR 1 B C4' DG 10 PLANAR 1 13.53 1.20 115.70 129.23 A A A C5' C4' C3' DG DG DG 4 4 4 N 1 11.70 1.10 109.80 121.50 A A A C5' C4' O4' DG DG DG 4 4 4 N 1 14.01 1.20 115.70 129.71 B B B C5' C4' C3' DG DG DG 8 8 8 N 1 11.09 1.10 109.80 120.89 B B B C5' C4' O4' DG DG DG 8 8 8 N 1 13.50 1.20 115.70 129.20 B B B C5' C4' C3' DG DG DG 10 10 10 N 1 11.57 1.10 109.80 121.37 B B B C5' C4' O4' DG DG DG 10 10 10 N 0.2670000 0.2120000 1.64 19.0 339 3824 3368 10 RANDOM 1 THROUGHOUT 1.0 MOLECULAR REPLACEMENT PDB entry 1DCG with its terminal bases modified 1.64 19.0 58 300 2 240 0 1.64 19 1LJX 3564 3468 1.0 1.0 0.0450000 1 97.3 phasing AMoRE refinement CNS data collection MAR345 data reduction AUTOMAR THE STRUCTURE OF D(TPGPCPGPCPA)2 AT 293K: COMPARISON OF THE EFFECT OF SEQUENCE AND TEMPERATURE 1 N N 1 N N 2 N N 2 N N 3 N N 3 N N metalc 2.002 A MG 19 C MG MG 1_555 A HOH 23 E O HOH 1_555 metalc 1.829 A MG 19 C MG MG 1_555 A HOH 24 E O HOH 1_555 metalc 2.018 A MG 19 C MG MG 1_555 A HOH 25 E O HOH 1_555 metalc 1.884 A MG 19 C MG MG 1_555 A HOH 63 E O HOH 1_555 metalc 2.075 B MG 18 D MG MG 1_555 B HOH 34 F O HOH 1_555 metalc 2.252 B MG 18 D MG MG 1_555 B HOH 43 F O HOH 1_555 metalc 2.043 B MG 18 D MG MG 1_555 B HOH 46 F O HOH 1_555 metalc 1.819 B MG 18 D MG MG 1_555 B HOH 49 F O HOH 1_555 metalc 2.489 B MG 18 D MG MG 1_555 B HOH 68 F O HOH 1_555 hydrog WATSON-CRICK A DT 1 A N3 DT 1 1_555 B DA 12 B N1 DA 6 1_555 hydrog WATSON-CRICK A DT 1 A O4 DT 1 1_555 B DA 12 B N6 DA 6 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B DC 11 B N3 DC 5 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B DC 11 B O2 DC 5 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B DC 11 B N4 DC 5 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 B DG 10 B N1 DG 4 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 B DG 10 B O6 DG 4 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 B DG 10 B N2 DG 4 1_555 hydrog WATSON-CRICK A DG 4 A N1 DG 4 1_555 B DC 9 B N3 DC 3 1_555 hydrog WATSON-CRICK A DG 4 A N2 DG 4 1_555 B DC 9 B O2 DC 3 1_555 hydrog WATSON-CRICK A DG 4 A O6 DG 4 1_555 B DC 9 B N4 DC 3 1_555 hydrog WATSON-CRICK A DC 5 A N3 DC 5 1_555 B DG 8 B N1 DG 2 1_555 hydrog WATSON-CRICK A DC 5 A N4 DC 5 1_555 B DG 8 B O6 DG 2 1_555 hydrog WATSON-CRICK A DC 5 A O2 DC 5 1_555 B DG 8 B N2 DG 2 1_555 hydrog WATSON-CRICK A DA 6 A N1 DA 6 1_555 B DT 7 B N3 DT 1 1_555 hydrog WATSON-CRICK A DA 6 A N6 DA 6 1_555 B DT 7 B O4 DT 1 1_555 DNA Z-DNA hexamer with AT base pairs at the terminal, DNA 1LJX PDB 1 1LJX 1 6 1LJX 1 6 1LJX A 1 1 6 7 12 1LJX 7 12 1LJX B 1 1 6 BINDING SITE FOR RESIDUE MG B 18 B MG 18 Software 5 BINDING SITE FOR RESIDUE MG A 19 A MG 19 Software 4 B HOH 34 F HOH 5 1_555 B HOH 43 F HOH 5 1_555 B HOH 46 F HOH 5 1_555 B HOH 49 F HOH 5 1_555 B HOH 68 F HOH 5 1_555 A HOH 23 E HOH 4 1_555 A HOH 24 E HOH 4 1_555 A HOH 25 E HOH 4 1_555 A HOH 63 E HOH 4 1_555 19 P 21 21 21