0.025903 0.000000 0.000000 0.000000 0.019676 0.000000 0.000000 0.000000 0.045998 0.00000 0.00000 0.00000 Langlois D'Estaintot, B. Dautant, A. Courseille, C. Precigoux, G. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 8 90.00 90.00 90.00 38.605 50.824 21.740 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 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 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 IX Eur.J.Biochem. EJBCAI 0262 0014-2956 213 673 682 10.1111/j.1432-1033.1993.tb17807.x 8477741 Orthorhombic crystal structure of the A-DNA octamer d(GTACGTAC). Comparison with the tetragonal structure. 1993 DK Acta Crystallogr.,Sect.A ACACEQ 0621 0108-7673 46 9 Crystal Structure Analysis of an A(DNA) Octamer d(GTACGTAC) 1990 10.2210/pdb197d/pdb pdb_0000197d 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 1 AREA DETECTOR SIEMENS-NICOLET x-ray 1 1.0 ROTATING ANODE SIEMENS 2426.617 DNA (5'-D(*GP*TP*AP*CP*GP*TP*AP*C)-3') 2 syn polymer 18.015 water 66 nat water no no (DG)(DT)(DA)(DC)(DG)(DT)(DA)(DC) GTACGTAC A,B polydeoxyribonucleotide n n n n n n n n 2.20 44.02 VAPOR DIFFUSION, SITTING DROP 6.00 pH 6.00, VAPOR DIFFUSION, SITTING DROP ROOM TEMPERATURE WATER 1 HMD 1 NA CACODYLATE 1 MGCL2 1 SPERMINE_HCL 1 WATER 2 MPD 2 -14.637 1 19 A 1 B 16 -3.814 A_DG1:DC16_B 1 -2.967 -0.739 -0.290 -0.360 4.763 1 20 A 2 B 15 -0.466 A_DT2:DA15_B 2 -8.363 -0.440 -0.055 -0.120 6.953 1 20 A 3 B 14 8.362 A_DA3:DT14_B 3 -19.328 -0.094 0.080 -0.215 4.759 1 19 A 4 B 13 1.762 A_DC4:DG13_B 4 -21.105 0.489 -0.213 -0.247 -2.140 1 19 A 5 B 12 1.397 A_DG5:DC12_B 5 -20.763 0.084 -0.171 -0.091 -2.194 1 20 A 6 B 11 3.521 A_DT6:DA11_B 6 -20.494 0.128 -0.156 -0.142 -8.646 1 20 A 7 B 10 2.039 A_DA7:DT10_B 7 -20.709 -0.611 -0.318 -0.316 7.883 1 19 A 8 B 9 0.141 A_DC8:DG9_B 8 -7.767 -0.019 -0.197 -0.058 3.008 32.693 A A 1 2 4.422 B B 16 15 3.075 2.484 -0.387 -1.068 AA_DG1DT2:DA15DC16_BB 1 -2.468 4.393 32.510 -2.298 0.290 2.629 37.155 A A 2 3 20.355 B B 15 14 3.226 12.724 0.167 -1.242 AA_DT2DA3:DT14DA15_BB 2 -0.494 0.790 34.977 -3.517 -0.323 3.093 36.113 A A 3 4 13.426 B B 14 13 3.402 8.253 -0.453 -0.934 AA_DA3DC4:DG13DT14_BB 3 1.274 -2.073 35.166 -2.681 0.912 0.900 33.143 A A 4 5 43.854 B B 13 12 3.284 22.775 -0.661 -2.289 AA_DC4DG5:DC12DG13_BB 4 -2.079 4.002 24.149 -6.877 0.898 3.145 33.992 A A 5 6 10.920 B B 12 11 3.367 6.348 0.318 -0.900 AA_DG5DT6:DA11DC12_BB 5 -0.336 0.578 33.409 -2.558 -0.598 1.755 31.373 A A 6 7 41.624 B B 11 10 3.331 20.574 0.604 -1.276 AA_DT6DA7:DT10DA11_BB 6 5.283 -10.688 23.222 -5.847 -0.222 2.423 33.600 A A 7 8 16.508 B B 10 9 2.917 9.418 0.399 -1.321 AA_DA7DC8:DG9DT10_BB 7 -1.681 2.946 32.247 -3.570 -0.920 chem_comp_atom chem_comp_bond database_2 repository Initial release Version format compliance Version format compliance Data collection Database references 1 0 1995-02-07 1 1 2008-05-22 1 2 2011-07-13 1 3 2024-02-07 _database_2.pdbx_DOI _database_2.pdbx_database_accession BNL Y NDB 1994-11-24 REL HOH water HOH 17 2 HOH HOH 17 A HOH 18 2 HOH HOH 18 A HOH 23 2 HOH HOH 23 A HOH 26 2 HOH HOH 26 A HOH 29 2 HOH HOH 29 A HOH 30 2 HOH HOH 30 A HOH 31 2 HOH HOH 31 A HOH 32 2 HOH HOH 32 A HOH 34 2 HOH HOH 34 A HOH 36 2 HOH HOH 36 A HOH 37 2 HOH HOH 37 A HOH 40 2 HOH HOH 40 A HOH 42 2 HOH HOH 42 A HOH 44 2 HOH HOH 44 A HOH 47 2 HOH HOH 47 A HOH 48 2 HOH HOH 48 A HOH 49 2 HOH HOH 49 A HOH 52 2 HOH HOH 52 A HOH 54 2 HOH HOH 54 A HOH 56 2 HOH HOH 56 A HOH 57 2 HOH HOH 57 A HOH 61 2 HOH HOH 61 A HOH 62 2 HOH HOH 62 A HOH 63 2 HOH HOH 63 A HOH 64 2 HOH HOH 64 A HOH 65 2 HOH HOH 65 A HOH 69 2 HOH HOH 69 A HOH 70 2 HOH HOH 70 A HOH 73 2 HOH HOH 73 A HOH 76 2 HOH HOH 76 A HOH 78 2 HOH HOH 78 A HOH 79 2 HOH HOH 79 A HOH 81 2 HOH HOH 81 A HOH 19 2 HOH HOH 19 B HOH 20 2 HOH HOH 20 B HOH 21 2 HOH HOH 21 B HOH 22 2 HOH HOH 22 B HOH 24 2 HOH HOH 24 B HOH 25 2 HOH HOH 25 B HOH 27 2 HOH HOH 27 B HOH 28 2 HOH HOH 28 B HOH 33 2 HOH HOH 33 B HOH 35 2 HOH HOH 35 B HOH 38 2 HOH HOH 38 B HOH 39 2 HOH HOH 39 B HOH 41 2 HOH HOH 41 B HOH 43 2 HOH HOH 43 B HOH 45 2 HOH HOH 45 B HOH 46 2 HOH HOH 46 B HOH 50 2 HOH HOH 50 B HOH 51 2 HOH HOH 51 B HOH 53 2 HOH HOH 53 B HOH 55 2 HOH HOH 55 B HOH 58 2 HOH HOH 58 B HOH 59 2 HOH HOH 59 B HOH 60 2 HOH HOH 60 B HOH 66 2 HOH HOH 66 B HOH 67 2 HOH HOH 67 B HOH 68 2 HOH HOH 68 B HOH 71 2 HOH HOH 71 B HOH 72 2 HOH HOH 72 B HOH 74 2 HOH HOH 74 B HOH 75 2 HOH HOH 75 B HOH 77 2 HOH HOH 77 B HOH 80 2 HOH HOH 80 B HOH 82 2 HOH HOH 82 B G 1 n 1 DG 1 A T 2 n 2 DT 2 A A 3 n 3 DA 3 A C 4 n 4 DC 4 A G 5 n 5 DG 5 A T 6 n 6 DT 6 A A 7 n 7 DA 7 A C 8 n 8 DC 8 A G 9 n 1 DG 9 B T 10 n 2 DT 10 B A 11 n 3 DA 11 B C 12 n 4 DC 12 B G 13 n 5 DG 13 B T 14 n 6 DT 14 B A 15 n 7 DA 15 B C 16 n 8 DC 16 B author_defined_assembly 2 dimeric 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 HOH 78 C HOH 1 B HOH 41 D HOH 1 B HOH 58 D HOH 1 6.63 1.10 109.80 116.43 A A A C5' C4' O4' DT DT DT 2 2 2 N 1 4.08 0.60 119.90 123.98 A A A N3 C4 O4 DT DT DT 2 2 2 N 1 -4.96 0.70 124.90 119.94 A A A C5 C4 O4 DT DT DT 2 2 2 N 1 7.69 1.20 110.70 118.39 A A A O5' P OP1 DA DA DA 3 3 3 N 1 7.54 1.10 109.80 117.34 A A A C5' C4' O4' DA DA DA 3 3 3 N 1 -12.48 1.90 112.60 100.12 A A A N9 C1' C2' DA DA DA 3 3 3 N 1 9.94 0.30 108.30 118.24 A A A O4' C1' N9 DA DA DA 3 3 3 N 1 7.33 0.60 118.60 125.93 A A A C6 N1 C2 DA DA DA 3 3 3 N 1 -5.59 0.50 129.30 123.71 A A A N1 C2 N3 DA DA DA 3 3 3 N 1 -4.11 0.50 117.70 113.59 A A A C5 C6 N1 DA DA DA 3 3 3 N 1 4.84 0.30 108.30 113.14 A A A O4' C1' N1 DC DC DC 4 4 4 N 1 4.07 0.50 119.90 123.97 A A A C2 N3 C4 DC DC DC 4 4 4 N 1 -3.81 0.40 121.90 118.09 A A A N3 C4 C5 DC DC DC 4 4 4 N 1 5.78 0.60 118.90 124.68 A A A N1 C2 O2 DC DC DC 4 4 4 N 1 -4.41 0.70 121.90 117.49 A A A N3 C2 O2 DC DC DC 4 4 4 N 1 5.46 0.70 118.00 123.46 A A A N3 C4 N4 DC DC DC 4 4 4 N 1 9.12 1.20 110.70 119.82 A A A O5' P OP1 DG DG DG 5 5 5 N 1 3.36 0.30 108.30 111.66 A A A O4' C1' N9 DG DG DG 5 5 5 N 1 7.15 1.10 110.50 117.65 A A A O3' P OP2 DG DT DT 5 6 6 Y 1 5.13 0.70 110.30 115.43 A A A C1' O4' C4' DT DT DT 6 6 6 N 1 2.67 0.30 108.30 110.97 A A A O4' C1' N1 DT DT DT 6 6 6 N 1 9.15 0.30 108.30 117.45 A A A O4' C1' N9 DA DA DA 7 7 7 N 1 4.21 0.60 118.60 122.81 A A A C6 N1 C2 DA DA DA 7 7 7 N 1 -4.27 0.50 129.30 125.03 A A A N1 C2 N3 DA DA DA 7 7 7 N 1 -3.03 0.50 117.70 114.67 A A A C5 C6 N1 DA DA DA 7 7 7 N 1 13.87 1.20 119.70 133.57 A A A C3' O3' P DA DA DC 7 7 8 Y 1 9.64 1.10 110.50 120.14 A A A O3' P OP2 DA DC DC 7 8 8 Y 1 13.67 0.30 108.30 121.97 A A A O4' C1' N1 DC DC DC 8 8 8 N 1 -4.90 0.80 109.40 104.50 B B B O5' C5' C4' DG DG DG 9 9 9 N 1 2.22 0.30 108.30 110.52 B B B O4' C1' N9 DG DG DG 9 9 9 N 1 11.01 1.10 109.80 120.81 B B B C5' C4' O4' DT DT DT 10 10 10 N 1 4.23 0.70 110.30 114.53 B B B C1' O4' C4' DT DT DT 10 10 10 N 1 3.39 0.30 108.30 111.69 B B B O4' C1' N1 DT DT DT 10 10 10 N 1 -4.29 0.60 119.90 115.61 B B B N3 C4 O4 DT DT DT 10 10 10 N 1 3.54 0.50 106.80 110.34 B B B O4' C1' C2' DA DA DA 11 11 11 N 1 4.80 0.60 118.60 123.40 B B B C6 N1 C2 DA DA DA 11 11 11 N 1 -3.71 0.50 129.30 125.59 B B B N1 C2 N3 DA DA DA 11 11 11 N 1 -4.70 0.50 117.70 113.00 B B B C5 C6 N1 DA DA DA 11 11 11 N 1 2.75 0.40 120.30 123.05 B B B C6 N1 C2 DC DC DC 12 12 12 N 1 7.38 1.20 110.70 118.08 B B B O5' P OP1 DG DG DG 13 13 13 N 1 7.79 1.20 115.70 123.49 B B B C5' C4' C3' DG DG DG 13 13 13 N 1 3.01 0.30 108.30 111.31 B B B O4' C1' N9 DG DG DG 13 13 13 N 1 4.75 0.60 118.60 123.35 B B B C6 N1 C2 DA DA DA 15 15 15 N 1 -4.93 0.50 129.30 124.37 B B B N1 C2 N3 DA DA DA 15 15 15 N 1 -11.69 1.20 119.70 108.01 B B B C3' O3' P DA DA DC 15 15 16 Y 1 3.72 0.60 106.00 109.72 B B B O4' C4' C3' DC DC DC 16 16 16 N 1 4.47 0.50 106.80 111.27 B B B O4' C1' C2' DC DC DC 16 16 16 N 1 8.62 0.30 108.30 116.92 B B B O4' C1' N1 DC DC DC 16 16 16 N 1 6.42 0.60 118.90 125.32 B B B N1 C2 O2 DC DC DC 16 16 16 N 1 -6.85 0.70 121.90 115.05 B B B N3 C2 O2 DC DC DC 16 16 16 N 1 7.77 0.70 118.00 125.77 B B B N3 C4 N4 DC DC DC 16 16 16 N 1 -6.05 0.70 120.20 114.15 B B B C5 C4 N4 DC DC DC 16 16 16 N 1 A A O4' C4' DT DT 6 6 -0.077 0.010 1.446 1.369 N 1 A A P O5' DC DC 8 8 0.081 0.010 1.593 1.674 N 0.1610000 2.190 10.000 1516 1 4.000 TR isotropic TR isotropic 2.190 10.000 66 388 0 322 0 0.017 0.025 0.043 0.050 0.058 0.040 0.048 0.050 0.030 0.030 0.113 0.062 0.150 0.062 fix fix 2.190 197D 4465 1 refinement NUCLSQ ORTHORHOMBIC CRYSTAL STRUCTURE OF THE A-DNA OCTAMER D(GTACGTAC). COMPARISON WITH THE TETRAGONAL STRUCTURE 1 N N 1 N N 2 N N 2 N N hydrog WATSON-CRICK A DG 1 A N1 DG 1 1_555 B DC 16 B N3 DC 8 1_555 hydrog WATSON-CRICK A DG 1 A N2 DG 1 1_555 B DC 16 B O2 DC 8 1_555 hydrog WATSON-CRICK A DG 1 A O6 DG 1 1_555 B DC 16 B N4 DC 8 1_555 hydrog WATSON-CRICK A DT 2 A N3 DT 2 1_555 B DA 15 B N1 DA 7 1_555 hydrog WATSON-CRICK A DT 2 A O4 DT 2 1_555 B DA 15 B N6 DA 7 1_555 hydrog WATSON-CRICK A DA 3 A N1 DA 3 1_555 B DT 14 B N3 DT 6 1_555 hydrog WATSON-CRICK A DA 3 A N6 DA 3 1_555 B DT 14 B O4 DT 6 1_555 hydrog WATSON-CRICK A DC 4 A N3 DC 4 1_555 B DG 13 B N1 DG 5 1_555 hydrog WATSON-CRICK A DC 4 A N4 DC 4 1_555 B DG 13 B O6 DG 5 1_555 hydrog WATSON-CRICK A DC 4 A O2 DC 4 1_555 B DG 13 B N2 DG 5 1_555 hydrog WATSON-CRICK A DG 5 A N1 DG 5 1_555 B DC 12 B N3 DC 4 1_555 hydrog WATSON-CRICK A DG 5 A N2 DG 5 1_555 B DC 12 B O2 DC 4 1_555 hydrog WATSON-CRICK A DG 5 A O6 DG 5 1_555 B DC 12 B N4 DC 4 1_555 hydrog WATSON-CRICK A DT 6 A N3 DT 6 1_555 B DA 11 B N1 DA 3 1_555 hydrog WATSON-CRICK A DT 6 A O4 DT 6 1_555 B DA 11 B N6 DA 3 1_555 hydrog WATSON-CRICK A DA 7 A N1 DA 7 1_555 B DT 10 B N3 DT 2 1_555 hydrog WATSON-CRICK A DA 7 A N6 DA 7 1_555 B DT 10 B O4 DT 2 1_555 hydrog WATSON-CRICK A DC 8 A N3 DC 8 1_555 B DG 9 B N1 DG 1 1_555 hydrog WATSON-CRICK A DC 8 A N4 DC 8 1_555 B DG 9 B O6 DG 1 1_555 hydrog WATSON-CRICK A DC 8 A O2 DC 8 1_555 B DG 9 B N2 DG 1 1_555 DNA A-DNA, DOUBLE HELIX, DNA 197D PDB 1 197D 1 8 197D 1 8 197D A 1 1 8 9 16 197D 9 16 197D B 1 1 8 18 P 21 21 2