1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Smirnov, S. Matray, T.J. Kool, E.T. de los Santos, C. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C5 H11 O6 P 198.111 1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE ABASIC DIDEOXYRIBOSE 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 C21 H19 O6 P 398.346 2'-DEOXYRIBOFURANOSYLPYRENE-5'-MONOPHOSPHATE non-polymer UK Nucleic Acids Res. NARHAD 0389 0305-1048 30 5561 5569 10.1093/nar/gkf688 12490724 Integrity of duplex structures without hydrogen bonding: DNA with pyrene paired at abasic sites 2002 10.2210/pdb1fzl/pdb pdb_00001fzl 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 3989.729 5'-D(*CP*AP*CP*AP*AP*AP*CP*AP*(PYP)P*GP*CP*AP*C)-3' 1 syn polymer 3895.506 5'-D(*GP*TP*GP*CP*(3DR)P*TP*GP*TP*TP*TP*GP*TP*G)-3' 1 syn polymer no yes (DC)(DA)(DC)(DA)(DA)(DA)(DC)(DA)(PYP)(DG)(DC)(DA)(DC) CACAAACAXGCAC A polydeoxyribonucleotide no yes (DG)(DT)(DG)(DC)(3DR)(DT)(DG)(DT)(DT)(DT)(DG)(DT)(DG) GTGCNTGTTTGTG B 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 n n -7.565 1 19 A 1 B 26 -5.861 A_DC1:DG26_B 1 -17.787 -0.105 0.440 -0.148 -2.697 1 20 A 2 B 25 -9.439 A_DA2:DT25_B 2 -8.934 0.196 0.285 -0.130 12.995 1 19 A 3 B 24 -2.046 A_DC3:DG24_B 3 -14.499 0.902 -0.065 -0.221 2.414 1 20 A 4 B 23 0.013 A_DA4:DT23_B 4 -14.630 -0.204 -0.319 -0.219 3.578 1 20 A 5 B 22 -4.722 A_DA5:DT22_B 5 -11.909 0.175 -0.018 -0.099 7.426 1 20 A 6 B 21 -2.548 A_DA6:DT21_B 6 -6.825 0.314 0.237 -0.125 21.924 1 19 A 7 B 20 -2.201 A_DC7:DG20_B 7 -6.135 0.787 -0.196 -0.178 6.663 1 20 A 8 B 19 -0.772 A_DA8:DT19_B 8 -10.411 0.025 -0.035 -0.015 -15.297 1 19 A 10 B 17 1.265 A_DG10:DC17_B 9 -10.836 -0.836 -0.299 -0.244 -6.112 1 19 A 11 B 16 -1.284 A_DC11:DG16_B 10 9.878 0.477 0.121 -0.094 28.969 1 20 A 12 B 15 -0.963 A_DA12:DT15_B 11 -8.232 0.278 0.632 -0.107 37.152 1 19 A 13 B 14 2.423 A_DC13:DG14_B 12 -11.601 0.936 -0.772 -0.119 2.000 36.303 A A 1 2 23.798 B B 26 25 2.731 14.414 -0.891 -1.546 AA_DC1DA2:DT25DG26_BB 1 -3.962 6.541 33.177 -4.011 1.010 2.979 32.634 A A 2 3 -5.136 B B 25 24 2.803 -2.871 1.453 0.061 AA_DA2DC3:DG24DT25_BB 2 5.210 -9.322 32.102 0.553 -1.780 2.633 42.240 A A 3 4 32.264 B B 24 23 3.186 22.099 -1.946 -0.689 AA_DC3DA4:DT23DG24_BB 3 -6.048 8.830 35.727 -3.164 2.097 2.704 28.284 A A 4 5 14.010 B B 23 22 3.142 6.745 -0.187 -1.419 AA_DA4DA5:DT22DT23_BB 4 -5.161 10.721 27.004 -4.335 -0.712 2.836 35.812 A A 5 6 13.841 B B 22 21 3.127 8.433 0.222 -0.852 AA_DA5DA6:DT21DT22_BB 5 -1.724 2.830 34.795 -2.508 -0.591 2.908 38.764 A A 6 7 -0.413 B B 21 20 2.897 -0.274 0.208 -0.556 AA_DA6DC7:DG20DT21_BB 6 2.139 -3.224 38.706 -0.809 -0.081 2.831 36.806 A A 7 8 26.943 B B 20 19 3.242 16.281 -1.829 -0.981 AA_DC7DA8:DT19DG20_BB 7 -8.883 14.700 31.933 -3.768 1.688 7.221 72.099 A A 8 10 3.057 B B 19 17 7.231 3.597 0.890 -0.054 AA_DA8DG10:DC17DT19_BB 8 -0.007 0.006 72.021 -0.311 -0.757 3.411 37.469 A A 10 11 -5.753 B B 17 16 3.205 -3.678 -1.196 -0.903 AA_DG10DC11:DG16DC17_BB 9 -5.383 8.419 36.917 -0.914 1.143 2.528 26.172 A A 11 12 -2.136 B B 16 15 2.445 -0.966 -0.569 -1.271 AA_DC11DA12:DT15DG16_BB 10 -2.201 4.867 26.064 -2.608 0.802 3.713 45.357 A A 12 13 -18.008 B B 15 14 3.528 -13.632 1.216 -0.657 AA_DA12DC13:DG14DT15_BB 11 7.470 -9.867 42.743 0.531 -0.820 database_2 pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list struct_conn repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2000-10-18 1 1 2008-04-27 1 2 2011-07-13 1 3 2022-02-23 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _struct_conn.pdbx_leaving_atom_flag 1FZS contains a replication intermediate with a 3'-terminal pyrene residue paired at an abasic site RCSB Y RCSB 2000-10-03 REL REL target function 15 6 2D NOESY 2D NOESY 50 mM 6.8 1 atm 284 K 50 mM 6.8 1 atm 308 K molecular annealing 3 closest to the average 3.6 mM 10%D2O/90%H2O 3.6 mM 99.6%D2O Varian Co. collection VNMR 5 MSI Co. processing Felix 95 A. Brunger refinement X-PLOR 3.8 500 Varian UNITYPLUS 600 Varian UNITYPLUS C 1 n 1 DC 1 A A 2 n 2 DA 2 A C 3 n 3 DC 3 A A 4 n 4 DA 4 A A 5 n 5 DA 5 A A 6 n 6 DA 6 A C 7 n 7 DC 7 A A 8 n 8 DA 8 A PYP 9 n 9 PYP 9 A G 10 n 10 DG 10 A C 11 n 11 DC 11 A A 12 n 12 DA 12 A C 13 n 13 DC 13 A G 14 n 1 DG 14 B T 15 n 2 DT 15 B G 16 n 3 DG 16 B C 17 n 4 DC 17 B 3DR 18 n 5 3DR 18 B T 19 n 6 DT 19 B G 20 n 7 DG 20 B T 21 n 8 DT 21 B T 22 n 9 DT 22 B T 23 n 10 DT 23 B G 24 n 11 DG 24 B T 25 n 12 DT 25 B G 26 n 13 DG 26 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 3.31 0.50 113.80 117.11 A A A N7 C8 N9 DA DA DA 2 2 2 N 1 8.63 1.40 114.30 122.93 A A A N1 C1' C2' DC DC DC 3 3 3 N 1 8.52 0.30 108.30 116.82 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 3.30 0.50 113.80 117.10 A A A N7 C8 N9 DA DA DA 4 4 4 N 1 3.68 0.60 118.90 122.58 A A A N1 C2 O2 DC DC DC 7 7 7 N 1 5.12 0.30 108.30 113.42 A A A O4' C1' N9 DG DG DG 10 10 10 N 1 1.86 0.30 108.30 110.16 A A A O4' C1' N1 DC DC DC 11 11 11 N 1 -5.05 0.80 105.90 100.85 A A A O4' C1' C2' DA DA DA 12 12 12 N 1 2.62 0.30 108.30 110.92 B B B O4' C1' N9 DG DG DG 14 14 14 N 1 3.01 0.50 113.10 116.11 B B B N7 C8 N9 DG DG DG 14 14 14 N 1 -2.57 0.40 106.40 103.83 B B B C8 N9 C4 DG DG DG 14 14 14 N 1 1.93 0.30 108.30 110.23 B B B O4' C1' N1 DT DT DT 15 15 15 N 1 -6.10 0.80 105.90 99.80 B B B O4' C1' C2' DG DG DG 16 16 16 N 1 -2.42 0.40 106.40 103.98 B B B C8 N9 C4 DG DG DG 16 16 16 N 1 -5.36 0.80 102.40 97.04 B B B C3' C2' C1' DC DC DC 17 17 17 N 1 7.31 0.30 108.30 115.61 B B B O4' C1' N1 DC DC DC 17 17 17 N 1 4.04 0.30 108.30 112.34 B B B O4' C1' N1 DT DT DT 19 19 19 N 1 2.01 0.30 108.30 110.31 B B B O4' C1' N9 DG DG DG 20 20 20 N 1 -2.59 0.40 106.40 103.81 B B B C8 N9 C4 DG DG DG 20 20 20 N 1 3.71 0.60 119.00 122.71 B B B C4 C5 C7 DT DT DT 23 23 23 N 1 -6.31 0.60 122.90 116.59 B B B C6 C5 C7 DT DT DT 23 23 23 N 1 -4.90 0.80 105.90 101.00 B B B O4' C1' C2' DG DG DG 24 24 24 N 1 2.68 0.30 108.30 110.98 B B B O4' C1' N9 DG DG DG 24 24 24 N 1 3.64 0.50 113.10 116.74 B B B N7 C8 N9 DG DG DG 24 24 24 N 1 -2.67 0.40 106.40 103.73 B B B C8 N9 C4 DG DG DG 24 24 24 N 1 3.75 0.30 108.30 112.05 B B B O4' C1' N1 DT DT DT 25 25 25 N 1 -4.94 0.80 102.40 97.46 B B B C3' C2' C1' DG DG DG 26 26 26 N 1 4.47 0.30 108.30 112.77 B B B O4' C1' N9 DG DG DG 26 26 26 N 2 3.73 0.60 118.90 122.63 A A A N1 C2 O2 DC DC DC 1 1 1 N 2 6.98 1.10 109.80 116.78 A A A C5' C4' O4' DA DA DA 2 2 2 N 2 -5.88 0.80 105.90 100.02 A A A O4' C1' C2' DA DA DA 2 2 2 N 2 3.23 0.50 113.80 117.03 A A A N7 C8 N9 DA DA DA 2 2 2 N 2 8.83 0.30 108.30 117.13 A A A O4' C1' N1 DC DC DC 3 3 3 N 2 3.23 0.50 113.80 117.03 A A A N7 C8 N9 DA DA DA 4 4 4 N 2 -5.15 0.80 105.90 100.75 A A A O4' C1' C2' DA DA DA 5 5 5 N 2 2.34 0.30 108.30 110.64 A A A O4' C1' N9 DA DA DA 5 5 5 N 2 -4.87 0.80 105.90 101.03 A A A O4' C1' C2' DA DA DA 6 6 6 N 2 3.61 0.30 108.30 111.91 A A A O4' C1' N9 DG DG DG 10 10 10 N 2 2.46 0.30 108.30 110.76 A A A O4' C1' N1 DC DC DC 11 11 11 N 2 2.00 0.30 108.30 110.30 A A A O4' C1' N9 DA DA DA 12 12 12 N 2 2.29 0.30 108.30 110.59 B B B O4' C1' N9 DG DG DG 14 14 14 N 2 3.09 0.50 113.10 116.19 B B B N7 C8 N9 DG DG DG 14 14 14 N 2 -5.12 0.80 105.90 100.78 B B B O4' C1' C2' DG DG DG 16 16 16 N 2 -2.70 0.40 106.40 103.70 B B B C8 N9 C4 DG DG DG 16 16 16 N 2 -5.42 0.80 102.40 96.98 B B B C3' C2' C1' DC DC DC 17 17 17 N 2 8.01 0.30 108.30 116.31 B B B O4' C1' N1 DC DC DC 17 17 17 N 2 6.06 0.30 108.30 114.36 B B B O4' C1' N1 DT DT DT 19 19 19 N 2 -3.71 0.60 122.90 119.19 B B B C6 C5 C7 DT DT DT 19 19 19 N 2 2.16 0.30 108.30 110.46 B B B O4' C1' N9 DG DG DG 20 20 20 N 2 -2.69 0.40 106.40 103.71 B B B C8 N9 C4 DG DG DG 20 20 20 N 2 2.26 0.30 108.30 110.56 B B B O4' C1' N1 DT DT DT 21 21 21 N 2 -4.98 0.80 105.90 100.92 B B B O4' C1' C2' DT DT DT 22 22 22 N 2 -3.93 0.60 122.90 118.97 B B B C6 C5 C7 DT DT DT 22 22 22 N 2 4.00 0.60 119.00 123.00 B B B C4 C5 C7 DT DT DT 23 23 23 N 2 -6.64 0.60 122.90 116.26 B B B C6 C5 C7 DT DT DT 23 23 23 N 2 4.18 0.30 108.30 112.48 B B B O4' C1' N9 DG DG DG 24 24 24 N 2 3.32 0.50 113.10 116.42 B B B N7 C8 N9 DG DG DG 24 24 24 N 2 4.96 0.30 108.30 113.26 B B B O4' C1' N1 DT DT DT 25 25 25 N 2 3.06 0.50 113.10 116.16 B B B N7 C8 N9 DG DG DG 26 26 26 N 3 3.73 0.60 118.90 122.63 A A A N1 C2 O2 DC DC DC 1 1 1 N 3 -5.37 0.80 105.90 100.53 A A A O4' C1' C2' DA DA DA 2 2 2 N 3 3.11 0.50 113.80 116.91 A A A N7 C8 N9 DA DA DA 2 2 2 N 3 -4.89 0.80 102.40 97.51 A A A C3' C2' C1' DC DC DC 3 3 3 N 3 8.25 0.30 108.30 116.55 A A A O4' C1' N1 DC DC DC 3 3 3 N 3 3.00 0.50 113.80 116.80 A A A N7 C8 N9 DA DA DA 4 4 4 N 3 -5.71 0.80 105.90 100.19 A A A O4' C1' C2' DA DA DA 5 5 5 N 3 3.78 0.30 108.30 112.08 A A A O4' C1' N9 DA DA DA 5 5 5 N 3 2.87 0.30 108.30 111.17 A A A O4' C1' N9 DA DA DA 6 6 6 N 3 2.77 0.30 108.30 111.07 A A A O4' C1' N1 DC DC DC 7 7 7 N 3 6.22 0.30 108.30 114.52 A A A O4' C1' N9 DA DA DA 8 8 8 N 3 3.95 0.30 108.30 112.25 A A A O4' C1' N9 DG DG DG 10 10 10 N 3 -2.41 0.40 106.40 103.99 A A A C8 N9 C4 DG DG DG 10 10 10 N 3 2.75 0.30 108.30 111.05 A A A O4' C1' N1 DC DC DC 11 11 11 N 3 2.21 0.30 108.30 110.51 B B B O4' C1' N9 DG DG DG 14 14 14 N 3 3.09 0.50 113.10 116.19 B B B N7 C8 N9 DG DG DG 14 14 14 N 3 -4.96 0.80 105.90 100.94 B B B O4' C1' C2' DG DG DG 16 16 16 N 3 -2.72 0.40 106.40 103.68 B B B C8 N9 C4 DG DG DG 16 16 16 N 3 7.08 0.30 108.30 115.38 B B B O4' C1' N1 DC DC DC 17 17 17 N 3 6.58 0.30 108.30 114.88 B B B O4' C1' N1 DT DT DT 19 19 19 N 3 2.83 0.30 108.30 111.13 B B B O4' C1' N9 DG DG DG 20 20 20 N 3 -2.68 0.40 106.40 103.72 B B B C8 N9 C4 DG DG DG 20 20 20 N 3 3.08 0.30 108.30 111.38 B B B O4' C1' N1 DT DT DT 21 21 21 N 3 -4.95 0.80 105.90 100.95 B B B O4' C1' C2' DT DT DT 22 22 22 N 3 2.37 0.30 108.30 110.67 B B B O4' C1' N1 DT DT DT 23 23 23 N 3 3.85 0.60 119.00 122.85 B B B C4 C5 C7 DT DT DT 23 23 23 N 3 -6.53 0.60 122.90 116.37 B B B C6 C5 C7 DT DT DT 23 23 23 N 3 1.82 0.30 108.30 110.13 B B B O4' C1' N9 DG DG DG 24 24 24 N 3 3.65 0.50 113.10 116.75 B B B N7 C8 N9 DG DG DG 24 24 24 N 3 -2.63 0.40 106.40 103.77 B B B C8 N9 C4 DG DG DG 24 24 24 N 3 5.25 0.30 108.30 113.55 B B B O4' C1' N1 DT DT DT 25 25 25 N 3 2.73 0.30 108.30 111.03 B B B O4' C1' N9 DG DG DG 26 26 26 N 3 3.13 0.50 113.10 116.23 B B B N7 C8 N9 DG DG DG 26 26 26 N 4 -5.30 0.80 105.90 100.60 A A A O4' C1' C2' DA DA DA 2 2 2 N 4 9.10 0.30 108.30 117.40 A A A O4' C1' N1 DC DC DC 3 3 3 N 4 3.30 0.50 113.80 117.10 A A A N7 C8 N9 DA DA DA 4 4 4 N 4 -5.80 0.80 105.90 100.10 A A A O4' C1' C2' DA DA DA 5 5 5 N 4 6.07 0.30 108.30 114.37 A A A O4' C1' N9 DA DA DA 5 5 5 N 4 4.75 0.30 108.30 113.05 A A A O4' C1' N9 DG DG DG 10 10 10 N 4 4.00 0.60 118.90 122.90 A A A N1 C2 O2 DC DC DC 11 11 11 N 4 2.61 0.30 108.30 110.91 B B B O4' C1' N9 DG DG DG 14 14 14 N 4 -2.49 0.40 106.40 103.91 B B B C8 N9 C4 DG DG DG 14 14 14 N 4 1.83 0.30 108.30 110.13 B B B O4' C1' N1 DT DT DT 15 15 15 N 4 -6.56 0.80 105.90 99.34 B B B O4' C1' C2' DG DG DG 16 16 16 N 4 1.85 0.30 108.30 110.15 B B B O4' C1' N9 DG DG DG 16 16 16 N 4 -2.51 0.40 106.40 103.89 B B B C8 N9 C4 DG DG DG 16 16 16 N 4 6.88 0.30 108.30 115.18 B B B O4' C1' N1 DC DC DC 17 17 17 N 4 5.88 0.30 108.30 114.18 B B B O4' C1' N1 DT DT DT 19 19 19 N 4 2.07 0.30 108.30 110.37 B B B O4' C1' N9 DG DG DG 20 20 20 N 4 -2.49 0.40 106.40 103.91 B B B C8 N9 C4 DG DG DG 20 20 20 N 4 2.24 0.30 108.30 110.54 B B B O4' C1' N1 DT DT DT 21 21 21 N 4 2.08 0.30 108.30 110.38 B B B O4' C1' N1 DT DT DT 23 23 23 N 4 3.93 0.60 119.00 122.93 B B B C4 C5 C7 DT DT DT 23 23 23 N 4 -6.61 0.60 122.90 116.29 B B B C6 C5 C7 DT DT DT 23 23 23 N 4 5.27 0.30 108.30 113.57 B B B O4' C1' N9 DG DG DG 24 24 24 N 4 3.27 0.50 113.10 116.37 B B B N7 C8 N9 DG DG DG 24 24 24 N 4 4.67 0.30 108.30 112.97 B B B O4' C1' N1 DT DT DT 25 25 25 N 5 3.72 0.60 118.90 122.62 A A A N1 C2 O2 DC DC DC 1 1 1 N 5 -5.64 0.80 105.90 100.26 A A A O4' C1' C2' DA DA DA 2 2 2 N 5 -4.90 0.80 102.40 97.50 A A A C3' C2' C1' DC DC DC 3 3 3 N 5 9.07 0.30 108.30 117.37 A A A O4' C1' N1 DC DC DC 3 3 3 N 5 -5.88 0.80 105.90 100.02 A A A O4' C1' C2' DA DA DA 5 5 5 N 5 3.14 0.30 108.30 111.44 A A A O4' C1' N9 DA DA DA 5 5 5 N 5 1.90 0.30 108.30 110.20 A A A O4' C1' N9 DA DA DA 6 6 6 N 5 5.17 0.30 108.30 113.47 A A A O4' C1' N9 DG DG DG 10 10 10 N 5 2.44 0.30 108.30 110.74 A A A O4' C1' N1 DC DC DC 11 11 11 N 5 3.12 0.30 108.30 111.42 B B B O4' C1' N9 DG DG DG 14 14 14 N 5 3.09 0.50 113.10 116.19 B B B N7 C8 N9 DG DG DG 14 14 14 N 5 -5.84 0.80 105.90 100.06 B B B O4' C1' C2' DG DG DG 16 16 16 N 5 -2.57 0.40 106.40 103.83 B B B C8 N9 C4 DG DG DG 16 16 16 N 5 6.84 0.30 108.30 115.14 B B B O4' C1' N1 DC DC DC 17 17 17 N 5 10.41 1.20 119.70 130.11 B B B C3' O3' P 3DR 3DR DT 18 18 19 Y 5 5.27 0.30 108.30 113.57 B B B O4' C1' N1 DT DT DT 19 19 19 N 5 2.80 0.30 108.30 111.10 B B B O4' C1' N9 DG DG DG 20 20 20 N 5 1.99 0.30 108.30 110.29 B B B O4' C1' N1 DT DT DT 21 21 21 N 5 -3.79 0.60 122.90 119.11 B B B C6 C5 C7 DT DT DT 22 22 22 N 5 4.00 0.60 119.00 123.00 B B B C4 C5 C7 DT DT DT 23 23 23 N 5 -6.66 0.60 122.90 116.24 B B B C6 C5 C7 DT DT DT 23 23 23 N 5 4.75 0.30 108.30 113.05 B B B O4' C1' N9 DG DG DG 24 24 24 N 5 3.48 0.50 113.10 116.58 B B B N7 C8 N9 DG DG DG 24 24 24 N 5 -2.51 0.40 106.40 103.89 B B B C8 N9 C4 DG DG DG 24 24 24 N 5 3.83 0.30 108.30 112.13 B B B O4' C1' N1 DT DT DT 25 25 25 N 5 3.25 0.50 113.10 116.35 B B B N7 C8 N9 DG DG DG 26 26 26 N 5 -2.45 0.40 106.40 103.95 B B B C8 N9 C4 DG DG DG 26 26 26 N 6 3.69 0.60 118.90 122.59 A A A N1 C2 O2 DC DC DC 1 1 1 N 6 -5.65 0.80 105.90 100.25 A A A O4' C1' C2' DA DA DA 2 2 2 N 6 3.02 0.50 113.80 116.82 A A A N7 C8 N9 DA DA DA 2 2 2 N 6 8.69 0.30 108.30 116.99 A A A O4' C1' N1 DC DC DC 3 3 3 N 6 -4.98 0.80 105.90 100.92 A A A O4' C1' C2' DA DA DA 5 5 5 N 6 2.26 0.30 108.30 110.56 A A A O4' C1' N9 DA DA DA 5 5 5 N 6 4.09 0.30 108.30 112.39 A A A O4' C1' N9 DG DG DG 10 10 10 N 6 2.62 0.30 108.30 110.92 B B B O4' C1' N9 DG DG DG 14 14 14 N 6 3.09 0.50 113.10 116.19 B B B N7 C8 N9 DG DG DG 14 14 14 N 6 -2.56 0.40 106.40 103.84 B B B C8 N9 C4 DG DG DG 16 16 16 N 6 -5.21 0.80 102.40 97.19 B B B C3' C2' C1' DC DC DC 17 17 17 N 6 7.49 0.30 108.30 115.79 B B B O4' C1' N1 DC DC DC 17 17 17 N 6 7.77 1.20 119.70 127.47 B B B C3' O3' P DC DC 3DR 17 17 18 Y 6 5.46 0.30 108.30 113.76 B B B O4' C1' N1 DT DT DT 19 19 19 N 6 -2.73 0.40 106.40 103.67 B B B C8 N9 C4 DG DG DG 20 20 20 N 6 2.39 0.30 108.30 110.69 B B B O4' C1' N1 DT DT DT 21 21 21 N 6 -3.62 0.60 122.90 119.28 B B B C6 C5 C7 DT DT DT 22 22 22 N 6 3.89 0.60 119.00 122.89 B B B C4 C5 C7 DT DT DT 23 23 23 N 6 -6.59 0.60 122.90 116.31 B B B C6 C5 C7 DT DT DT 23 23 23 N 6 -4.98 0.80 105.90 100.92 B B B O4' C1' C2' DG DG DG 24 24 24 N 6 2.68 0.30 108.30 110.98 B B B O4' C1' N9 DG DG DG 24 24 24 N 6 3.43 0.50 113.10 116.53 B B B N7 C8 N9 DG DG DG 24 24 24 N 6 -2.58 0.40 106.40 103.82 B B B C8 N9 C4 DG DG DG 24 24 24 N 6 4.82 0.30 108.30 113.12 B B B O4' C1' N1 DT DT DT 25 25 25 N 6 3.19 0.30 108.30 111.49 B B B O4' C1' N9 DG DG DG 26 26 26 N 6 3.05 0.50 113.10 116.15 B B B N7 C8 N9 DG DG DG 26 26 26 N 1 A A C4 N4 DC DC 1 1 0.095 0.009 1.335 1.430 N 1 A A C6 N6 DA DA 2 2 0.089 0.008 1.335 1.424 N 1 A A C4 N4 DC DC 3 3 0.095 0.009 1.335 1.430 N 1 A A C6 N6 DA DA 4 4 0.095 0.008 1.335 1.430 N 1 A A C6 N6 DA DA 5 5 0.096 0.008 1.335 1.431 N 1 A A C6 N6 DA DA 6 6 0.095 0.008 1.335 1.430 N 1 A A C4 N4 DC DC 7 7 0.095 0.009 1.335 1.430 N 1 A A C6 N6 DA DA 8 8 0.097 0.008 1.335 1.432 N 1 A A C2 N2 DG DG 10 10 0.083 0.010 1.341 1.424 N 1 A A C4 N4 DC DC 11 11 0.095 0.009 1.335 1.430 N 1 A A C6 N6 DA DA 12 12 0.096 0.008 1.335 1.431 N 1 A A C4 N4 DC DC 13 13 0.095 0.009 1.335 1.430 N 1 B B C2 N2 DG DG 14 14 0.076 0.010 1.341 1.417 N 1 B B C5 C7 DT DT 15 15 0.037 0.006 1.496 1.533 N 1 B B C2 N2 DG DG 16 16 0.085 0.010 1.341 1.426 N 1 B B C4 N4 DC DC 17 17 0.096 0.009 1.335 1.431 N 1 B B C5 C7 DT DT 19 19 0.047 0.006 1.496 1.543 N 1 B B C2 N2 DG DG 20 20 0.085 0.010 1.341 1.426 N 1 B B C5 C7 DT DT 21 21 0.038 0.006 1.496 1.534 N 1 B B C5 C7 DT DT 22 22 0.039 0.006 1.496 1.535 N 1 B B C2 N2 DG DG 24 24 0.086 0.010 1.341 1.427 N 1 B B C5 C7 DT DT 25 25 0.040 0.006 1.496 1.536 N 1 B B C2 N2 DG DG 26 26 0.087 0.010 1.341 1.428 N 2 A A C4 N4 DC DC 1 1 0.095 0.009 1.335 1.430 N 2 A A C6 N6 DA DA 2 2 0.090 0.008 1.335 1.425 N 2 A A C4 N4 DC DC 3 3 0.091 0.009 1.335 1.426 N 2 A A C6 N6 DA DA 4 4 0.096 0.008 1.335 1.431 N 2 A A C6 N6 DA DA 5 5 0.096 0.008 1.335 1.431 N 2 A A C6 N6 DA DA 6 6 0.092 0.008 1.335 1.427 N 2 A A C4 N4 DC DC 7 7 0.095 0.009 1.335 1.430 N 2 A A C6 N6 DA DA 8 8 0.094 0.008 1.335 1.429 N 2 A A C2 N2 DG DG 10 10 0.082 0.010 1.341 1.423 N 2 A A C4 N4 DC DC 11 11 0.095 0.009 1.335 1.430 N 2 A A C6 N6 DA DA 12 12 0.094 0.008 1.335 1.429 N 2 A A C4 N4 DC DC 13 13 0.094 0.009 1.335 1.429 N 2 B B C2 N2 DG DG 14 14 0.078 0.010 1.341 1.419 N 2 B B C5 C7 DT DT 15 15 0.037 0.006 1.496 1.533 N 2 B B C2 N2 DG DG 16 16 0.086 0.010 1.341 1.427 N 2 B B C4 N4 DC DC 17 17 0.095 0.009 1.335 1.430 N 2 B B C5 C7 DT DT 19 19 0.042 0.006 1.496 1.538 N 2 B B C2 N2 DG DG 20 20 0.082 0.010 1.341 1.423 N 2 B B C5 C7 DT DT 22 22 0.038 0.006 1.496 1.534 N 2 B B C2 N2 DG DG 24 24 0.084 0.010 1.341 1.425 N 2 B B C5 C7 DT DT 25 25 0.038 0.006 1.496 1.534 N 2 B B C2 N2 DG DG 26 26 0.090 0.010 1.341 1.431 N 3 A A C4 N4 DC DC 1 1 0.099 0.009 1.335 1.434 N 3 A A C6 N6 DA DA 2 2 0.084 0.008 1.335 1.419 N 3 A A C4 N4 DC DC 3 3 0.093 0.009 1.335 1.428 N 3 A A C6 N6 DA DA 4 4 0.096 0.008 1.335 1.431 N 3 A A C6 N6 DA DA 5 5 0.095 0.008 1.335 1.430 N 3 A A C6 N6 DA DA 6 6 0.095 0.008 1.335 1.430 N 3 A A C4 N4 DC DC 7 7 0.094 0.009 1.335 1.429 N 3 A A C6 N6 DA DA 8 8 0.092 0.008 1.335 1.427 N 3 A A C2 N2 DG DG 10 10 0.085 0.010 1.341 1.426 N 3 A A C4 N4 DC DC 11 11 0.094 0.009 1.335 1.429 N 3 A A C6 N6 DA DA 12 12 0.095 0.008 1.335 1.430 N 3 A A C4 N4 DC DC 13 13 0.092 0.009 1.335 1.427 N 3 B B C2 N2 DG DG 14 14 0.079 0.010 1.341 1.420 N 3 B B C2 N2 DG DG 16 16 0.084 0.010 1.341 1.425 N 3 B B C4 N4 DC DC 17 17 0.096 0.009 1.335 1.431 N 3 B B C5 C7 DT DT 19 19 0.037 0.006 1.496 1.533 N 3 B B C2 N2 DG DG 20 20 0.080 0.010 1.341 1.421 N 3 B B C5 C7 DT DT 22 22 0.040 0.006 1.496 1.536 N 3 B B C2 N2 DG DG 24 24 0.084 0.010 1.341 1.425 N 3 B B C5 C7 DT DT 25 25 0.038 0.006 1.496 1.534 N 3 B B C2 N2 DG DG 26 26 0.088 0.010 1.341 1.429 N 4 A A C4 N4 DC DC 1 1 0.095 0.009 1.335 1.430 N 4 A A C6 N6 DA DA 2 2 0.089 0.008 1.335 1.424 N 4 A A C4 N4 DC DC 3 3 0.095 0.009 1.335 1.430 N 4 A A C6 N6 DA DA 4 4 0.097 0.008 1.335 1.432 N 4 A A C6 N6 DA DA 5 5 0.095 0.008 1.335 1.430 N 4 A A C6 N6 DA DA 6 6 0.094 0.008 1.335 1.429 N 4 A A C4 N4 DC DC 7 7 0.093 0.009 1.335 1.428 N 4 A A C6 N6 DA DA 8 8 0.096 0.008 1.335 1.431 N 4 A A C2 N2 DG DG 10 10 0.084 0.010 1.341 1.425 N 4 A A C4 N4 DC DC 11 11 0.096 0.009 1.335 1.431 N 4 A A C6 N6 DA DA 12 12 0.097 0.008 1.335 1.432 N 4 A A C4 N4 DC DC 13 13 0.093 0.009 1.335 1.428 N 4 B B C2 N2 DG DG 14 14 0.079 0.010 1.341 1.420 N 4 B B C2 N2 DG DG 16 16 0.084 0.010 1.341 1.425 N 4 B B C4 N4 DC DC 17 17 0.092 0.009 1.335 1.427 N 4 B B C2 N2 DG DG 20 20 0.081 0.010 1.341 1.422 N 4 B B C5 C7 DT DT 21 21 0.042 0.006 1.496 1.538 N 4 B B C5 C7 DT DT 22 22 0.038 0.006 1.496 1.534 N 4 B B C2 N2 DG DG 24 24 0.086 0.010 1.341 1.427 N 4 B B C5 C7 DT DT 25 25 0.038 0.006 1.496 1.534 N 4 B B C2 N2 DG DG 26 26 0.086 0.010 1.341 1.427 N 5 A A C4 N4 DC DC 1 1 0.097 0.009 1.335 1.432 N 5 A A C6 N6 DA DA 2 2 0.089 0.008 1.335 1.424 N 5 A A C4 N4 DC DC 3 3 0.094 0.009 1.335 1.429 N 5 A A C6 N6 DA DA 4 4 0.098 0.008 1.335 1.433 N 5 A A C6 N6 DA DA 5 5 0.097 0.008 1.335 1.432 N 5 A A C6 N6 DA DA 6 6 0.094 0.008 1.335 1.429 N 5 A A C4 N4 DC DC 7 7 0.094 0.009 1.335 1.429 N 5 A A C6 N6 DA DA 8 8 0.095 0.008 1.335 1.430 N 5 A A C2 N2 DG DG 10 10 0.083 0.010 1.341 1.424 N 5 A A C4 N4 DC DC 11 11 0.094 0.009 1.335 1.429 N 5 A A C6 N6 DA DA 12 12 0.093 0.008 1.335 1.428 N 5 A A C4 N4 DC DC 13 13 0.094 0.009 1.335 1.429 N 5 B B C2 N2 DG DG 14 14 0.079 0.010 1.341 1.420 N 5 B B C2 N2 DG DG 16 16 0.084 0.010 1.341 1.425 N 5 B B C4 N4 DC DC 17 17 0.094 0.009 1.335 1.429 N 5 B B C5 C7 DT DT 19 19 0.036 0.006 1.496 1.532 N 5 B B C2 N2 DG DG 20 20 0.080 0.010 1.341 1.421 N 5 B B C5 C7 DT DT 22 22 0.041 0.006 1.496 1.537 N 5 B B C2 N2 DG DG 24 24 0.085 0.010 1.341 1.426 N 5 B B C2 N2 DG DG 26 26 0.087 0.010 1.341 1.428 N 6 A A C4 N4 DC DC 1 1 0.097 0.009 1.335 1.432 N 6 A A C6 N6 DA DA 2 2 0.087 0.008 1.335 1.422 N 6 A A C4 N4 DC DC 3 3 0.096 0.009 1.335 1.431 N 6 A A C6 N6 DA DA 4 4 0.098 0.008 1.335 1.433 N 6 A A C6 N6 DA DA 5 5 0.096 0.008 1.335 1.431 N 6 A A C6 N6 DA DA 6 6 0.094 0.008 1.335 1.429 N 6 A A C4 N4 DC DC 7 7 0.093 0.009 1.335 1.428 N 6 A A C6 N6 DA DA 8 8 0.097 0.008 1.335 1.432 N 6 A A C2 N2 DG DG 10 10 0.085 0.010 1.341 1.426 N 6 A A C4 N4 DC DC 11 11 0.096 0.009 1.335 1.431 N 6 A A C6 N6 DA DA 12 12 0.094 0.008 1.335 1.429 N 6 A A C4 N4 DC DC 13 13 0.092 0.009 1.335 1.427 N 6 B B C2 N2 DG DG 14 14 0.080 0.010 1.341 1.421 N 6 B B C5 C7 DT DT 15 15 0.037 0.006 1.496 1.533 N 6 B B C2 N2 DG DG 16 16 0.085 0.010 1.341 1.426 N 6 B B C4 N4 DC DC 17 17 0.093 0.009 1.335 1.428 N 6 B B C2 N2 DG DG 20 20 0.085 0.010 1.341 1.426 N 6 B B C5 C7 DT DT 21 21 0.037 0.006 1.496 1.533 N 6 B B C5 C7 DT DT 22 22 0.041 0.006 1.496 1.537 N 6 B B C2 N2 DG DG 24 24 0.086 0.010 1.341 1.427 N 6 B B C5 C7 DT DT 25 25 0.038 0.006 1.496 1.534 N 6 B B C2 N2 DG DG 26 26 0.083 0.010 1.341 1.424 N DNA WITH PYRENE PAIRED AT ABASIC SITES 1 N N 2 N N covale 1.619 one A DA 8 A O3' DA 8 1_555 A PYP 9 A P PYP 9 1_555 covale 1.618 one A PYP 9 A O3' PYP 9 1_555 A DG 10 A P DG 10 1_555 covale 1.621 both B DC 17 B O3' DC 4 1_555 B 3DR 18 B P 3DR 5 1_555 covale 1.618 both B 3DR 18 B O3' 3DR 5 1_555 B DT 19 B P DT 6 1_555 hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 B DG 26 B N1 DG 13 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 B DG 26 B O6 DG 13 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 B DG 26 B N2 DG 13 1_555 hydrog WATSON-CRICK A DA 2 A N1 DA 2 1_555 B DT 25 B N3 DT 12 1_555 hydrog WATSON-CRICK A DA 2 A N6 DA 2 1_555 B DT 25 B O4 DT 12 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 B DG 24 B N1 DG 11 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 B DG 24 B O6 DG 11 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 B DG 24 B N2 DG 11 1_555 hydrog WATSON-CRICK A DA 4 A N1 DA 4 1_555 B DT 23 B N3 DT 10 1_555 hydrog WATSON-CRICK A DA 4 A N6 DA 4 1_555 B DT 23 B O4 DT 10 1_555 hydrog WATSON-CRICK A DA 5 A N1 DA 5 1_555 B DT 22 B N3 DT 9 1_555 hydrog WATSON-CRICK A DA 5 A N6 DA 5 1_555 B DT 22 B O4 DT 9 1_555 hydrog WATSON-CRICK A DA 6 A N1 DA 6 1_555 B DT 21 B N3 DT 8 1_555 hydrog WATSON-CRICK A DA 6 A N6 DA 6 1_555 B DT 21 B O4 DT 8 1_555 hydrog WATSON-CRICK A DC 7 A N3 DC 7 1_555 B DG 20 B N1 DG 7 1_555 hydrog WATSON-CRICK A DC 7 A N4 DC 7 1_555 B DG 20 B O6 DG 7 1_555 hydrog WATSON-CRICK A DC 7 A O2 DC 7 1_555 B DG 20 B N2 DG 7 1_555 hydrog WATSON-CRICK A DA 8 A N1 DA 8 1_555 B DT 19 B N3 DT 6 1_555 hydrog WATSON-CRICK A DA 8 A N6 DA 8 1_555 B DT 19 B O4 DT 6 1_555 hydrog WATSON-CRICK A DG 10 A N1 DG 10 1_555 B DC 17 B N3 DC 4 1_555 hydrog WATSON-CRICK A DG 10 A N2 DG 10 1_555 B DC 17 B O2 DC 4 1_555 hydrog WATSON-CRICK A DG 10 A O6 DG 10 1_555 B DC 17 B N4 DC 4 1_555 hydrog WATSON-CRICK A DC 11 A N3 DC 11 1_555 B DG 16 B N1 DG 3 1_555 hydrog WATSON-CRICK A DC 11 A N4 DC 11 1_555 B DG 16 B O6 DG 3 1_555 hydrog WATSON-CRICK A DC 11 A O2 DC 11 1_555 B DG 16 B N2 DG 3 1_555 hydrog WATSON-CRICK A DA 12 A N1 DA 12 1_555 B DT 15 B N3 DT 2 1_555 hydrog WATSON-CRICK A DA 12 A N6 DA 12 1_555 B DT 15 B O4 DT 2 1_555 hydrog WATSON-CRICK A DC 13 A N3 DC 13 1_555 B DG 14 B N1 DG 1 1_555 hydrog WATSON-CRICK A DC 13 A N4 DC 13 1_555 B DG 14 B O6 DG 1 1_555 hydrog WATSON-CRICK A DC 13 A O2 DC 13 1_555 B DG 14 B N2 DG 1 1_555 DNA pyrene, tetrahydrofuran, non-hydrogen bonded DNA base pair, DNA 1FZL PDB 1 1FZL 1FZL PDB 2 1FZL 1 13 1FZL 1 13 1FZL A 1 1 13 14 26 1FZL 14 26 1FZL B 2 1 13 1 P 1