0.038476 0.000000 0.000000 0.000000 0.022712 0.000000 0.000000 0.000000 0.015011 0.00000 0.00000 0.00000 Aymani, J. Coll, M. Van Der Marel, G.A. Van Boom, J.H. Wang, A.H.-J. Rich, A. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 4 90.00 90.00 90.00 25.990 44.030 66.620 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 US Proc.Natl.Acad.Sci.USA PNASA6 0040 0027-8424 87 2526 2530 10.1073/pnas.87.7.2526 2320572 Molecular structure of nicked DNA: a substrate for DNA repair enzymes. 1990 US Biochemistry BICHAW 0033 0006-2960 28 310 320 Molecular Structure of the Netropsin-d(CGCGATATCGCG) Complex. DNA Conformation in an Alternating AT Segment 1989 US Proc.Natl.Acad.Sci.USA PNASA6 0040 0027-8424 84 8385 8389 A Bifurcated Hydrogen-Bonded Conformation in the d(*A(dot)*T) Base Pairs of the DNA Dodecamer d(CGCAAATTTGCG) and Its Complex With Distamycin 1987 UK Nature NATUAS 0006 0028-0836 287 755 Crystal Structure Analysis of a Complete Turn of B-DNA 1980 10.2210/pdb1ndn/pdb pdb_00001ndn 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 298.00 1 DIFFRACTOMETER RIGAKU AFC-5R x-ray 1 1.0 ROTATING ANODE 3681.420 DNA (5'-D(*CP*GP*CP*GP*AP*AP*AP*AP*CP*GP*CP*G)-3') 1 syn polymer 1800.203 DNA (5'-D(*CP*GP*CP*GP*TP*T)-3') 1 syn polymer 1800.203 DNA (5'-D(*TP*TP*CP*GP*CP*G)-3') 1 syn polymer 18.015 water 61 nat water no no (DC)(DG)(DC)(DG)(DA)(DA)(DA)(DA)(DC)(DG)(DC)(DG) CGCGAAAACGCG A polydeoxyribonucleotide no no (DC)(DG)(DC)(DG)(DT)(DT) CGCGTT B polydeoxyribonucleotide no no (DT)(DT)(DC)(DG)(DC)(DG) TTCGCG C polydeoxyribonucleotide n n n n n n n n n n n n n n n n n n n n n n n n 2.62 53.01 VAPOR DIFFUSION 5.00 pH 5.00, VAPOR DIFFUSION, temperature 277.00K 277.00 WATER 1 MPD 1 MGCL2 1 NA CACODYLATE 1 SPERMINE_HCL 1 WATER 2 MPD 2 -8.690 1 19 A 1 C 24 -1.317 A_DC1:DG24_C 1 -0.583 0.028 -0.233 -0.104 -9.210 1 19 A 2 C 23 -2.823 A_DG2:DC23_C 2 -0.057 -0.037 -0.196 -0.125 -12.061 1 19 A 3 C 22 -5.990 A_DC3:DG22_C 3 -5.356 -0.016 0.457 -0.104 13.062 1 19 A 4 C 21 -4.742 A_DG4:DC21_C 4 -5.646 -0.079 0.510 -0.089 13.723 1 20 A 5 C 20 -6.492 A_DA5:DT20_C 5 -27.390 0.472 0.325 -0.102 -1.884 1 20 A 6 C 19 -5.836 A_DA6:DT19_C 6 2.523 0.481 -1.022 -0.212 11.274 1 20 A 7 B 18 -2.732 A_DA7:DT18_B 7 5.281 0.378 -0.030 -0.052 -2.184 1 20 A 8 B 17 -3.273 A_DA8:DT17_B 8 -4.808 0.387 -0.551 -0.119 -23.520 1 19 A 9 B 16 -2.698 A_DC9:DG16_B 9 -9.178 -0.016 0.126 -0.021 -23.987 1 19 A 10 B 15 -1.257 A_DG10:DC15_B 10 -7.475 -0.061 -1.274 -0.092 5.789 1 19 A 11 B 14 0.789 A_DC11:DG14_B 11 -15.520 0.125 -0.678 -0.170 -21.023 1 19 A 12 B 13 -2.307 A_DG12:DC13_B 12 -7.616 -0.109 -0.572 -0.021 4.003 43.403 A A 1 2 -25.859 C C 24 23 4.297 -18.384 -1.157 0.147 AA_DC1DG2:DC23DG24_CC 1 -10.351 14.559 38.149 2.627 0.197 3.139 37.441 A A 2 3 -1.602 C C 23 22 3.134 -1.020 -0.452 0.692 AA_DG2DC3:DG22DC23_CC 2 -8.158 12.807 36.559 1.207 -0.336 2.247 29.974 A A 3 4 -15.490 C C 22 21 2.423 -7.920 0.225 0.355 AA_DC3DG4:DC21DG22_CC 3 -0.218 0.427 28.931 1.873 -0.468 2.771 39.284 A A 4 5 18.174 C C 21 20 3.191 11.958 -0.433 -1.022 AA_DG4DA5:DT20DC21_CC 4 -7.850 11.930 36.683 -2.867 -0.240 3.696 38.497 A A 5 6 -15.374 C C 20 19 3.831 -10.028 -0.481 0.033 AA_DA5DA6:DT19DT20_CC 5 0.299 -0.458 37.215 1.508 0.773 2.462 40.675 A A 6 7 5.885 C B 19 18 2.437 4.034 -0.845 -1.056 AA_DA6DA7:DT18DT19_BC 6 -11.311 16.499 38.933 -1.863 0.255 3.529 40.779 A A 7 8 11.156 B B 18 17 3.599 7.666 -1.409 -1.279 AA_DA7DA8:DT17DT18_BB 7 -9.331 13.578 39.023 -2.779 0.873 3.252 37.918 A A 8 9 -25.935 B B 17 16 3.533 -16.264 -0.585 0.009 AA_DA8DC9:DG16DT17_BB 8 -6.172 9.843 33.823 2.308 0.029 3.685 31.745 A A 9 10 15.912 B B 16 15 3.757 8.315 0.232 1.282 AA_DC9DG10:DC15DG16_BB 9 13.838 -26.479 27.424 0.472 2.691 2.528 37.008 A A 10 11 -3.125 B B 15 14 2.372 -1.942 -0.885 0.004 AA_DG10DC11:DG14DC15_BB 10 -13.138 21.139 34.621 0.209 0.023 4.351 37.669 A A 11 12 22.861 B B 14 13 4.299 14.351 0.431 0.932 AA_DC11DG12:DC13DG14_BB 11 5.915 -9.423 34.429 -1.139 0.397 chem_comp_atom chem_comp_bond database_2 repository Initial release Version format compliance Version format compliance Data collection Database references 1 0 1992-07-14 1 1 2008-05-22 1 2 2011-07-13 1 3 2024-02-14 _database_2.pdbx_DOI _database_2.pdbx_database_accession BNL Y BNL 1992-01-15 REL HOH water HOH 27 4 HOH HOH 27 A HOH 28 4 HOH HOH 28 A HOH 30 4 HOH HOH 30 A HOH 32 4 HOH HOH 32 A HOH 35 4 HOH HOH 35 A HOH 36 4 HOH HOH 36 A HOH 41 4 HOH HOH 41 A HOH 42 4 HOH HOH 42 A HOH 44 4 HOH HOH 44 A HOH 45 4 HOH HOH 45 A HOH 48 4 HOH HOH 48 A HOH 50 4 HOH HOH 50 A HOH 51 4 HOH HOH 51 A HOH 52 4 HOH HOH 52 A HOH 54 4 HOH HOH 54 A HOH 59 4 HOH HOH 59 A HOH 60 4 HOH HOH 60 A HOH 63 4 HOH HOH 63 A HOH 64 4 HOH HOH 64 A HOH 66 4 HOH HOH 66 A HOH 67 4 HOH HOH 67 A HOH 68 4 HOH HOH 68 A HOH 69 4 HOH HOH 69 A HOH 71 4 HOH HOH 71 A HOH 74 4 HOH HOH 74 A HOH 75 4 HOH HOH 75 A HOH 76 4 HOH HOH 76 A HOH 77 4 HOH HOH 77 A HOH 79 4 HOH HOH 79 A HOH 85 4 HOH HOH 85 A HOH 82 4 HOH HOH 82 B HOH 25 4 HOH HOH 25 C HOH 26 4 HOH HOH 26 C HOH 29 4 HOH HOH 29 C HOH 31 4 HOH HOH 31 C HOH 33 4 HOH HOH 33 C HOH 34 4 HOH HOH 34 C HOH 37 4 HOH HOH 37 C HOH 38 4 HOH HOH 38 C HOH 39 4 HOH HOH 39 C HOH 40 4 HOH HOH 40 C HOH 43 4 HOH HOH 43 C HOH 46 4 HOH HOH 46 C HOH 47 4 HOH HOH 47 C HOH 49 4 HOH HOH 49 C HOH 53 4 HOH HOH 53 C HOH 55 4 HOH HOH 55 C HOH 56 4 HOH HOH 56 C HOH 57 4 HOH HOH 57 C HOH 58 4 HOH HOH 58 C HOH 61 4 HOH HOH 61 C HOH 62 4 HOH HOH 62 C HOH 65 4 HOH HOH 65 C HOH 70 4 HOH HOH 70 C HOH 72 4 HOH HOH 72 C HOH 73 4 HOH HOH 73 C HOH 78 4 HOH HOH 78 C HOH 80 4 HOH HOH 80 C HOH 81 4 HOH HOH 81 C HOH 83 4 HOH HOH 83 C HOH 84 4 HOH HOH 84 C C 1 n 1 DC 1 A G 2 n 2 DG 2 A C 3 n 3 DC 3 A G 4 n 4 DG 4 A A 5 n 5 DA 5 A A 6 n 6 DA 6 A A 7 n 7 DA 7 A A 8 n 8 DA 8 A C 9 n 9 DC 9 A G 10 n 10 DG 10 A C 11 n 11 DC 11 A G 12 n 12 DG 12 A C 13 n 1 DC 13 B G 14 n 2 DG 14 B C 15 n 3 DC 15 B G 16 n 4 DG 16 B T 17 n 5 DT 17 B T 18 n 6 DT 18 B T 19 n 1 DT 19 C T 20 n 2 DT 20 C C 21 n 3 DC 21 C G 22 n 4 DG 22 C C 23 n 5 DC 23 C G 24 n 6 DG 24 C author_and_software_defined_assembly PISA 3 trimeric 1480 -5 4310 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 4.39 0.70 118.00 122.39 A A A N3 C4 N4 DC DC DC 1 1 1 N 1 18.61 1.20 119.70 138.31 A A A C3' O3' P DC DC DG 1 1 2 Y 1 -4.91 0.60 128.60 123.69 A A A C5 C6 O6 DG DG DG 2 2 2 N 1 10.66 1.20 119.70 130.36 A A A C3' O3' P DG DG DC 2 2 3 Y 1 -13.80 1.50 119.60 105.80 A A A OP1 P OP2 DC DC DC 3 3 3 N 1 8.52 1.20 110.70 119.22 A A A O5' P OP1 DC DC DC 3 3 3 N 1 4.73 0.30 108.30 113.03 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 7.11 0.70 118.00 125.11 A A A N3 C4 N4 DC DC DC 3 3 3 N 1 -5.40 0.70 120.20 114.80 A A A C5 C4 N4 DC DC DC 3 3 3 N 1 -8.84 1.20 119.70 110.86 A A A C3' O3' P DC DC DG 3 3 4 Y 1 10.72 1.20 110.70 121.42 A A A O5' P OP1 DG DG DG 4 4 4 N 1 -5.11 0.80 105.90 100.79 A A A O4' C1' C2' DG DG DG 4 4 4 N 1 7.78 0.30 108.30 116.08 A A A O4' C1' N9 DG DG DG 4 4 4 N 1 -3.61 0.60 125.10 121.49 A A A C6 N1 C2 DG DG DG 4 4 4 N 1 3.14 0.50 111.50 114.64 A A A C5 C6 N1 DG DG DG 4 4 4 N 1 -4.04 0.60 128.60 124.56 A A A C5 C6 O6 DG DG DG 4 4 4 N 1 -10.40 1.50 119.60 109.20 A A A OP1 P OP2 DA DA DA 5 5 5 N 1 7.02 0.30 108.30 115.32 A A A O4' C1' N9 DA DA DA 5 5 5 N 1 4.62 0.60 118.60 123.22 A A A C6 N1 C2 DA DA DA 5 5 5 N 1 -5.27 0.50 129.30 124.03 A A A N1 C2 N3 DA DA DA 5 5 5 N 1 19.91 1.20 119.70 139.61 A A A C3' O3' P DA DA DA 5 5 6 Y 1 -13.82 1.50 119.60 105.78 A A A OP1 P OP2 DA DA DA 6 6 6 N 1 -5.02 0.70 102.20 97.18 A A A C4' C3' C2' DA DA DA 6 6 6 N 1 -10.51 0.80 102.40 91.89 A A A C3' C2' C1' DA DA DA 6 6 6 N 1 7.82 0.30 108.30 116.12 A A A O4' C1' N9 DA DA DA 6 6 6 N 1 4.36 0.60 118.60 122.96 A A A C6 N1 C2 DA DA DA 6 6 6 N 1 -4.24 0.50 129.30 125.06 A A A N1 C2 N3 DA DA DA 6 6 6 N 1 10.65 1.20 119.70 130.35 A A A C3' O3' P DA DA DA 6 6 7 Y 1 -9.69 1.50 119.60 109.91 A A A OP1 P OP2 DA DA DA 7 7 7 N 1 -7.61 0.80 102.40 94.79 A A A C3' C2' C1' DA DA DA 7 7 7 N 1 10.17 0.30 108.30 118.47 A A A O4' C1' N9 DA DA DA 7 7 7 N 1 3.73 0.60 118.60 122.33 A A A C6 N1 C2 DA DA DA 7 7 7 N 1 -3.44 0.50 129.30 125.86 A A A N1 C2 N3 DA DA DA 7 7 7 N 1 15.53 1.20 119.70 135.23 A A A C3' O3' P DA DA DA 7 7 8 Y 1 -9.27 1.50 119.60 110.33 A A A OP1 P OP2 DA DA DA 8 8 8 N 1 12.40 1.60 120.90 133.30 A A A P O5' C5' DA DA DA 8 8 8 N 1 -4.06 0.40 104.50 100.44 A A A O4' C4' C3' DA DA DA 8 8 8 N 1 5.05 0.30 108.30 113.35 A A A O4' C1' N9 DA DA DA 8 8 8 N 1 4.14 0.60 118.60 122.74 A A A C6 N1 C2 DA DA DA 8 8 8 N 1 -4.51 0.50 129.30 124.79 A A A N1 C2 N3 DA DA DA 8 8 8 N 1 7.96 1.20 119.70 127.66 A A A C3' O3' P DA DA DC 8 8 9 Y 1 3.03 0.30 108.30 111.33 A A A O4' C1' N1 DC DC DC 9 9 9 N 1 4.80 0.70 118.00 122.80 A A A N3 C4 N4 DC DC DC 9 9 9 N 1 28.34 1.20 119.70 148.04 A A A C3' O3' P DC DC DG 9 9 10 Y 1 -11.86 1.50 119.60 107.74 A A A OP1 P OP2 DG DG DG 10 10 10 N 1 4.42 0.30 108.30 112.72 A A A O4' C1' N9 DG DG DG 10 10 10 N 1 -4.25 0.60 125.10 120.85 A A A C6 N1 C2 DG DG DG 10 10 10 N 1 3.60 0.50 111.50 115.10 A A A C5 C6 N1 DG DG DG 10 10 10 N 1 -14.23 1.50 119.60 105.37 A A A OP1 P OP2 DC DC DC 11 11 11 N 1 10.35 1.60 120.90 131.25 A A A P O5' C5' DC DC DC 11 11 11 N 1 2.48 0.30 108.30 110.78 A A A O4' C1' N1 DC DC DC 11 11 11 N 1 -2.47 0.40 121.90 119.43 A A A N3 C4 C5 DC DC DC 11 11 11 N 1 3.22 0.50 121.00 124.22 A A A C5 C6 N1 DC DC DC 11 11 11 N 1 21.29 1.20 119.70 140.99 A A A C3' O3' P DC DC DG 11 11 12 Y 1 -10.98 1.50 119.60 108.62 A A A OP1 P OP2 DG DG DG 12 12 12 N 1 4.49 0.30 108.30 112.79 A A A O4' C1' N9 DG DG DG 12 12 12 N 1 3.14 0.50 111.50 114.64 A A A C5 C6 N1 DG DG DG 12 12 12 N 1 -4.59 0.60 128.60 124.01 A A A C5 C6 O6 DG DG DG 12 12 12 N 1 -5.43 0.40 104.50 99.07 B B B O4' C4' C3' DC DC DC 13 13 13 N 1 -4.89 0.70 102.20 97.31 B B B C4' C3' C2' DC DC DC 13 13 13 N 1 7.83 1.20 119.70 127.53 B B B C3' O3' P DC DC DG 13 13 14 Y 1 -11.44 1.50 119.60 108.16 B B B OP1 P OP2 DG DG DG 14 14 14 N 1 6.72 0.30 108.30 115.02 B B B O4' C1' N9 DG DG DG 14 14 14 N 1 3.10 0.50 111.50 114.60 B B B C5 C6 N1 DG DG DG 14 14 14 N 1 -3.75 0.60 128.60 124.85 B B B C5 C6 O6 DG DG DG 14 14 14 N 1 16.60 1.20 119.70 136.30 B B B C3' O3' P DG DG DC 14 14 15 Y 1 5.82 0.30 108.30 114.12 B B B O4' C1' N1 DC DC DC 15 15 15 N 1 -2.42 0.40 121.90 119.48 B B B N3 C4 C5 DC DC DC 15 15 15 N 1 3.72 0.50 121.00 124.72 B B B C5 C6 N1 DC DC DC 15 15 15 N 1 -10.54 1.50 119.60 109.06 B B B OP1 P OP2 DG DG DG 16 16 16 N 1 -6.96 0.80 109.40 102.44 B B B O5' C5' C4' DG DG DG 16 16 16 N 1 4.33 0.30 108.30 112.63 B B B O4' C1' N9 DG DG DG 16 16 16 N 1 9.54 1.20 119.70 129.24 B B B C3' O3' P DG DG DT 16 16 17 Y 1 -9.65 1.60 120.90 111.25 B B B P O5' C5' DT DT DT 17 17 17 N 1 5.05 0.30 108.30 113.35 B B B O4' C1' N1 DT DT DT 17 17 17 N 1 -4.36 0.60 127.20 122.84 B B B C2 N3 C4 DT DT DT 17 17 17 N 1 3.62 0.60 115.20 118.82 B B B N3 C4 C5 DT DT DT 17 17 17 N 1 -4.48 0.60 122.30 117.82 B B B N3 C2 O2 DT DT DT 17 17 17 N 1 -4.61 0.60 119.90 115.29 B B B N3 C4 O4 DT DT DT 17 17 17 N 1 11.61 1.20 119.70 131.31 B B B C3' O3' P DT DT DT 17 17 18 Y 1 -9.31 1.50 119.60 110.29 B B B OP1 P OP2 DT DT DT 18 18 18 N 1 8.55 0.30 108.30 116.85 B B B O4' C1' N1 DT DT DT 18 18 18 N 1 -4.20 0.60 127.20 123.00 B B B C2 N3 C4 DT DT DT 18 18 18 N 1 -4.43 0.60 122.30 117.87 B B B N3 C2 O2 DT DT DT 18 18 18 N 1 -4.22 0.60 119.90 115.68 B B B N3 C4 O4 DT DT DT 18 18 18 N 1 5.96 0.30 108.30 114.26 C C C O4' C1' N1 DT DT DT 19 19 19 N 1 -4.42 0.60 127.20 122.78 C C C C2 N3 C4 DT DT DT 19 19 19 N 1 -5.28 0.60 122.30 117.02 C C C N3 C2 O2 DT DT DT 19 19 19 N 1 -4.57 0.60 119.90 115.33 C C C N3 C4 O4 DT DT DT 19 19 19 N 1 10.00 1.20 119.70 129.70 C C C C3' O3' P DT DT DT 19 19 20 Y 1 -11.41 1.50 119.60 108.19 C C C OP1 P OP2 DT DT DT 20 20 20 N 1 -5.25 0.80 109.40 104.15 C C C O5' C5' C4' DT DT DT 20 20 20 N 1 17.31 0.30 108.30 125.61 C C C O4' C1' N1 DT DT DT 20 20 20 N 1 -3.80 0.60 127.20 123.40 C C C C2 N3 C4 DT DT DT 20 20 20 N 1 -11.25 1.50 119.60 108.35 C C C OP1 P OP2 DC DC DC 21 21 21 N 1 4.07 0.30 108.30 112.37 C C C O4' C1' N1 DC DC DC 21 21 21 N 1 24.46 1.20 119.70 144.16 C C C C3' O3' P DC DC DG 21 21 22 Y 1 -13.22 1.50 119.60 106.38 C C C OP1 P OP2 DG DG DG 22 22 22 N 1 -6.13 1.00 110.10 103.97 C C C C1' O4' C4' DG DG DG 22 22 22 N 1 31.18 1.20 119.70 150.88 C C C C3' O3' P DG DG DC 22 22 23 Y 1 -13.70 1.50 119.60 105.90 C C C OP1 P OP2 DC DC DC 23 23 23 N 1 3.72 0.30 108.30 112.02 C C C O4' C1' N1 DC DC DC 23 23 23 N 1 9.22 1.20 119.70 128.92 C C C C3' O3' P DC DC DG 23 23 24 Y 1 -10.72 1.50 119.60 108.88 C C C OP1 P OP2 DG DG DG 24 24 24 N 1 4.47 0.30 108.30 112.77 C C C O4' C1' N9 DG DG DG 24 24 24 N 1 A A O3' P DC DG 3 4 0.096 0.012 1.607 1.703 Y 1 A A O3' P DA DA 5 6 -0.091 0.012 1.607 1.516 Y 1 A A P OP1 DA DA 6 6 0.130 0.017 1.485 1.615 N 1 A A O3' P DC DG 9 10 -0.085 0.012 1.607 1.522 Y 1 A A O3' P DC DG 11 12 -0.082 0.012 1.607 1.525 Y 1 B B N3 C4 DC DC 15 15 0.043 0.007 1.335 1.378 N 1 C C C2' C1' DT DT 20 20 0.064 0.010 1.519 1.583 N 1 C C O3' P DC DG 21 22 -0.099 0.012 1.607 1.508 Y 1 C C O4' C1' DG DG 22 22 0.075 0.011 1.420 1.495 N 1 C C O3' P DG DC 22 23 -0.111 0.012 1.607 1.496 Y 1 C C P O5' DC DC 23 23 0.091 0.010 1.593 1.684 N 0.1860000 3.000 553 1 2.000 MOLECULAR REPLACEMENT TR isotropic TR isotropic 3.000 61 544 0 483 0 fix fix 3.000 1NDN 553 2.000 1 model building ULTIMA refinement NUCLSQ phasing ULTIMA MOLECULAR STRUCTURE OF NICKED DNA. MODEL T4 1 N N 2 N N 3 N N 4 N N 4 N N 4 N N hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 C DG 24 C N1 DG 6 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 C DG 24 C O6 DG 6 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 C DG 24 C N2 DG 6 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 C DC 23 C N3 DC 5 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 C DC 23 C O2 DC 5 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 C DC 23 C N4 DC 5 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 C DG 22 C N1 DG 4 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 C DG 22 C O6 DG 4 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 C DG 22 C N2 DG 4 1_555 hydrog WATSON-CRICK A DG 4 A N1 DG 4 1_555 C DC 21 C N3 DC 3 1_555 hydrog WATSON-CRICK A DG 4 A N2 DG 4 1_555 C DC 21 C O2 DC 3 1_555 hydrog WATSON-CRICK A DG 4 A O6 DG 4 1_555 C DC 21 C N4 DC 3 1_555 hydrog WATSON-CRICK A DA 5 A N1 DA 5 1_555 C DT 20 C N3 DT 2 1_555 hydrog WATSON-CRICK A DA 5 A N6 DA 5 1_555 C DT 20 C O4 DT 2 1_555 hydrog WATSON-CRICK A DA 6 A N1 DA 6 1_555 C DT 19 C N3 DT 1 1_555 hydrog WATSON-CRICK A DA 6 A N6 DA 6 1_555 C DT 19 C O4 DT 1 1_555 hydrog WATSON-CRICK A DA 7 A N1 DA 7 1_555 B DT 18 B N3 DT 6 1_555 hydrog WATSON-CRICK A DA 7 A N6 DA 7 1_555 B DT 18 B O4 DT 6 1_555 hydrog WATSON-CRICK A DA 7 A N1 DA 7 1_555 C DT 19 C N3 DT 1 1_555 hydrog WATSON-CRICK A DA 7 A N6 DA 7 1_555 C DT 19 C O4 DT 1 1_555 hydrog WATSON-CRICK A DA 8 A N1 DA 8 1_555 B DT 17 B N3 DT 5 1_555 hydrog WATSON-CRICK A DA 8 A N6 DA 8 1_555 B DT 17 B O4 DT 5 1_555 hydrog WATSON-CRICK A DC 9 A N3 DC 9 1_555 B DG 16 B N1 DG 4 1_555 hydrog WATSON-CRICK A DC 9 A N4 DC 9 1_555 B DG 16 B O6 DG 4 1_555 hydrog WATSON-CRICK A DC 9 A O2 DC 9 1_555 B DG 16 B N2 DG 4 1_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 B DC 15 B N3 DC 3 1_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 B DC 15 B O2 DC 3 1_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 B DC 15 B N4 DC 3 1_555 hydrog WATSON-CRICK A DC 11 A N3 DC 11 1_555 B DG 14 B N1 DG 2 1_555 hydrog WATSON-CRICK A DC 11 A N4 DC 11 1_555 B DG 14 B O6 DG 2 1_555 hydrog WATSON-CRICK A DC 11 A O2 DC 11 1_555 B DG 14 B N2 DG 2 1_555 hydrog WATSON-CRICK A DG 12 A N1 DG 12 1_555 B DC 13 B N3 DC 1 1_555 hydrog WATSON-CRICK A DG 12 A N2 DG 12 1_555 B DC 13 B O2 DC 1 1_555 hydrog WATSON-CRICK A DG 12 A O6 DG 12 1_555 B DC 13 B N4 DC 1 1_555 DNA B-DNA, DOUBLE HELIX, NICKED, DNA 1NDN PDB 1 1NDN 1NDN PDB 2 1NDN 1NDN PDB 3 1NDN 1 12 1NDN 1 12 1NDN A 1 1 12 13 18 1NDN 13 18 1NDN B 2 1 6 19 24 1NDN 19 24 1NDN C 3 1 6 19 P 21 21 21