1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Feng, B. Stone, M.P. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 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 C18 H22 N5 O7 P 451.370 n 2'-DEOXY-N6-(R)STYRENE OXIDE ADENOSINE MONOPHOSPHATE DNA linking US Biochemistry BICHAW 0033 0006-2960 34 14021 14036 10.1021/bi00043a008 7578000 Major groove (R)-alpha-(N6-adenyl)styrene oxide adducts in an oligodeoxynucleotide containing the human N-ras codon 61 sequence: conformations of the R(61,2) and R(61,3) sequence isomers from 1H NMR. 1995 US Chem.Res.Toxicol. CRTOEC 2140 0893-228X 8 821 Solution Structure of an Oligodeoxynucleotide Containing the Human N-Ras Codon 61 Sequence Refined from 1H NMR Using Molecular Dynamics Restrained by Nuclear Overhauser Effects 1995 10.2210/pdb1agk/pdb pdb_00001agk 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 (R)-(N6-ADENYL)-STYRENE OXIDE-RAS61-2 DNA ADDUCT 3536.411 DNA (5'-D(*CP*GP*GP*AP*CP*RP*AP*GP*AP*AP*G)-3') 1 syn polymer (R)-(N6-ADENYL)-STYRENE OXIDE-RAS61-2 DNA ADDUCT 3291.145 DNA (5'-D(*CP*TP*TP*CP*TP*TP*GP*TP*CP*CP*G)-3') 1 syn polymer no yes (DC)(DG)(DG)(DA)(DC)(R)(DA)(DG)(DA)(DA)(DG) CGGACAAGAAG A polydeoxyribonucleotide no no (DC)(DT)(DT)(DC)(DT)(DT)(DG)(DT)(DC)(DC)(DG) CTTCTTGTCCG B polydeoxyribonucleotide n n n n n n n n n n n n n n n n n n n n n n -17.225 1 19 A 1 B 22 -2.180 A_DC1:DG22_B 1 -1.455 0.730 0.180 -0.369 -0.316 1 19 A 2 B 21 -0.132 A_DG2:DC21_B 2 -9.939 -0.761 0.025 -0.380 5.462 1 19 A 3 B 20 0.644 A_DG3:DC20_B 3 -7.830 -0.626 0.075 -0.221 0.714 1 20 A 4 B 19 3.227 A_DA4:DT19_B 4 -14.796 0.744 -0.597 -0.212 -11.411 1 19 A 5 B 18 -4.028 A_DC5:DG18_B 5 5.596 -0.341 -0.192 -0.172 3.436 1 20 A 6 B 17 -0.247 A_R6:DT17_B 6 -3.064 0.169 0.049 -0.056 12.139 1 20 A 7 B 16 -2.513 A_DA7:DT16_B 7 -13.973 0.525 0.048 -0.138 7.801 1 19 A 8 B 15 -2.424 A_DG8:DC15_B 8 -8.808 -0.599 0.223 -0.185 3.028 1 20 A 9 B 14 -3.417 A_DA9:DT14_B 9 -18.771 0.189 -0.123 -0.229 10.055 1 20 A 10 B 13 -2.873 A_DA10:DT13_B 10 -6.829 0.285 0.084 -0.213 29.256 1 19 A 11 B 12 2.211 A_DG11:DC12_B 11 4.463 -0.831 0.796 -0.257 2.442 30.653 A A 1 2 24.151 B B 22 21 2.633 12.413 0.342 0.034 AA_DC1DG2:DC21DG22_BB 1 1.289 -2.507 28.053 -1.922 -0.441 3.057 33.095 A A 2 3 1.648 B B 21 20 3.048 0.938 -0.365 0.039 AA_DG2DG3:DC20DC21_BB 2 -0.991 1.741 33.067 -0.080 0.484 3.596 40.636 A A 3 4 -5.411 B B 20 19 3.601 -3.749 0.444 0.181 AA_DG3DA4:DT19DC20_BB 3 3.611 -5.214 40.315 0.721 -0.196 3.414 37.242 A A 4 5 8.778 B B 19 18 3.335 5.542 -1.320 -0.637 AA_DA4DC5:DG18DT19_BB 4 -8.304 13.152 35.925 -1.771 0.908 3.263 34.017 A A 5 6 -3.423 B B 18 17 3.270 -2.000 -0.045 -0.204 AA_DC5R6:DT17DG18_BB 5 2.712 -4.643 33.855 -0.029 0.510 2.916 36.849 A A 6 7 6.662 B B 17 16 2.904 4.203 -0.394 0.303 AA_R6DA7:DT16DT17_BB 6 0.345 -0.547 36.616 -0.029 0.664 3.180 30.747 A A 7 8 1.181 B B 16 15 3.185 0.626 -0.077 -0.155 AA_DA7DG8:DC15DT16_BB 7 -1.932 3.646 30.681 -0.411 -0.223 3.373 40.597 A A 8 9 -7.065 B B 15 14 3.420 -4.885 -0.189 -0.030 AA_DG8DA9:DT14DC15_BB 8 3.543 -5.124 40.165 0.524 0.685 2.866 37.017 A A 9 10 -3.631 B B 14 13 2.882 -2.303 0.092 0.057 AA_DA9DA10:DT13DT14_BB 9 -1.797 2.834 36.905 0.363 -0.357 2.571 26.796 A A 10 11 11.708 B B 13 12 2.696 5.364 0.480 0.239 AA_DA10DG11:DC12DT13_BB 10 -4.559 9.950 25.871 -0.621 -2.001 database_2 entity_poly pdbx_database_status 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 Other Polymer sequence 1 0 1997-08-20 1 1 2008-03-24 1 2 2011-07-13 2 0 2022-02-16 _database_2.pdbx_DOI _database_2.pdbx_database_accession _entity_poly.pdbx_seq_one_letter_code _entity_poly.pdbx_seq_one_letter_code_can _pdbx_database_status.process_site _pdbx_nmr_software.name _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id MINIMIZED AVERAGE STRUCTURE MINIMIZED AVERAGE STRUCTURE Y BNL 1997-03-25 REL THIS STRUCTURE PROVIDED THE BEST-FIT FOR THE NOE DATA BASED ON THE RELAXATION MATRIX ANALYSIS USING CORMA 1 1 NOESY 2QF-COSY AND TOCSY : NOESY 2QF-COSY AND(DO 05'-D 6.9 293 K REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE. NOE-RESTRAINED MOLECULAR DYNAMICS/SIMULATED ANNEALING BRUNGER refinement X-PLOR 3.1 structure solution Felix structure solution X-PLOR structure solution MARDIGRAS structure solution CORMA 500 Bruker AMX500 C 1 n 1 DC 1 A G 2 n 2 DG 2 A G 3 n 3 DG 3 A A 4 n 4 DA 4 A C 5 n 5 DC 5 A R 6 n 6 R 6 A A 7 n 7 DA 7 A G 8 n 8 DG 8 A A 9 n 9 DA 9 A A 10 n 10 DA 10 A G 11 n 11 DG 11 A C 12 n 1 DC 12 B T 13 n 2 DT 13 B T 14 n 3 DT 14 B C 15 n 4 DC 15 B T 16 n 5 DT 16 B T 17 n 6 DT 17 B G 18 n 7 DG 18 B T 19 n 8 DT 19 B C 20 n 9 DC 20 B C 21 n 10 DC 21 B G 22 n 11 DG 22 B author_defined_assembly 2 dimeric A R 6 A R 6 DA 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 B HB O4 R DT 6 16 1.55 1 4.23 0.30 108.30 112.53 A A A O4' C1' N1 DC DC DC 1 1 1 N 1 -12.58 1.20 119.70 107.12 A A A C3' O3' P DC DC DG 1 1 2 Y 1 -30.88 1.90 104.00 73.12 A A A O3' P O5' DC DG DG 1 2 2 Y 1 20.82 1.10 110.50 131.32 A A A O3' P OP1 DC DG DG 1 2 2 Y 1 -24.59 0.90 105.70 81.11 A A A O5' P OP1 DG DG DG 2 2 2 N 1 2.34 0.30 108.30 110.64 A A A O4' C1' N9 DG DG DG 2 2 2 N 1 4.54 0.50 113.10 117.64 A A A N7 C8 N9 DG DG DG 2 2 2 N 1 -2.87 0.40 106.40 103.53 A A A C8 N9 C4 DG DG DG 2 2 2 N 1 2.57 0.30 108.30 110.87 A A A O4' C1' N9 DG DG DG 3 3 3 N 1 4.46 0.50 113.10 117.56 A A A N7 C8 N9 DG DG DG 3 3 3 N 1 -2.64 0.40 106.40 103.76 A A A C8 N9 C4 DG DG DG 3 3 3 N 1 3.30 0.30 108.30 111.60 A A A O4' C1' N9 DA DA DA 4 4 4 N 1 3.65 0.50 113.80 117.45 A A A N7 C8 N9 DA DA DA 4 4 4 N 1 -2.45 0.40 105.80 103.35 A A A C8 N9 C4 DA DA DA 4 4 4 N 1 2.39 0.30 108.30 110.69 A A A O4' C1' N1 DC DC DC 5 5 5 N 1 -3.16 0.50 129.30 126.14 A A A N1 C2 N3 DA DA DA 7 7 7 N 1 4.03 0.50 113.80 117.83 A A A N7 C8 N9 DA DA DA 7 7 7 N 1 -2.73 0.40 105.80 103.07 A A A C8 N9 C4 DA DA DA 7 7 7 N 1 2.87 0.30 108.30 111.17 A A A O4' C1' N9 DG DG DG 8 8 8 N 1 4.79 0.50 113.10 117.89 A A A N7 C8 N9 DG DG DG 8 8 8 N 1 -2.85 0.40 106.40 103.55 A A A C8 N9 C4 DG DG DG 8 8 8 N 1 1.83 0.30 108.30 110.13 A A A O4' C1' N9 DA DA DA 9 9 9 N 1 3.85 0.50 113.80 117.65 A A A N7 C8 N9 DA DA DA 9 9 9 N 1 -2.74 0.40 105.80 103.06 A A A C8 N9 C4 DA DA DA 9 9 9 N 1 2.49 0.30 108.30 110.79 A A A O4' C1' N9 DA DA DA 10 10 10 N 1 3.91 0.50 113.80 117.71 A A A N7 C8 N9 DA DA DA 10 10 10 N 1 -2.57 0.40 105.80 103.23 A A A C8 N9 C4 DA DA DA 10 10 10 N 1 2.65 0.30 108.30 110.95 A A A O4' C1' N9 DG DG DG 11 11 11 N 1 4.55 0.50 113.10 117.65 A A A N7 C8 N9 DG DG DG 11 11 11 N 1 -2.87 0.40 106.40 103.53 A A A C8 N9 C4 DG DG DG 11 11 11 N 1 3.24 0.30 108.30 111.54 B B B O4' C1' N1 DC DC DC 12 12 12 N 1 -12.73 1.20 119.70 106.97 B B B C3' O3' P DC DC DT 12 12 13 Y 1 -27.29 1.90 104.00 76.71 B B B O3' P O5' DC DT DT 12 13 13 Y 1 16.88 1.10 110.50 127.38 B B B O3' P OP1 DC DT DT 12 13 13 Y 1 -20.44 0.90 105.70 85.26 B B B O5' P OP1 DT DT DT 13 13 13 N 1 7.44 1.20 110.70 118.14 B B B O5' P OP2 DT DT DT 13 13 13 N 1 1.93 0.30 108.30 110.23 B B B O4' C1' N1 DT DT DT 13 13 13 N 1 -3.65 0.60 122.90 119.25 B B B C6 C5 C7 DT DT DT 13 13 13 N 1 13.96 1.10 110.50 124.46 B B B O3' P OP2 DT DT DT 13 14 14 Y 1 -10.98 0.90 105.70 94.72 B B B O5' P OP2 DT DT DT 14 14 14 N 1 -36.71 1.90 104.00 67.29 B B B O3' P O5' DT DC DC 14 15 15 Y 1 -29.81 2.20 105.20 75.39 B B B O3' P OP2 DT DC DC 14 15 15 Y 1 8.85 1.10 110.50 119.35 B B B O3' P OP1 DT DC DC 14 15 15 Y 1 25.26 1.20 110.70 135.96 B B B O5' P OP2 DC DC DC 15 15 15 N 1 2.87 0.30 108.30 111.17 B B B O4' C1' N1 DC DC DC 15 15 15 N 1 2.60 0.30 108.30 110.90 B B B O4' C1' N1 DT DT DT 16 16 16 N 1 1.86 0.30 108.30 110.16 B B B O4' C1' N1 DT DT DT 17 17 17 N 1 2.78 0.30 108.30 111.08 B B B O4' C1' N9 DG DG DG 18 18 18 N 1 4.44 0.50 113.10 117.54 B B B N7 C8 N9 DG DG DG 18 18 18 N 1 -2.55 0.40 106.40 103.85 B B B C8 N9 C4 DG DG DG 18 18 18 N 1 3.04 0.30 108.30 111.34 B B B O4' C1' N1 DT DT DT 19 19 19 N 1 2.37 0.30 108.30 110.67 B B B O4' C1' N1 DC DC DC 20 20 20 N 1 -31.66 1.90 104.00 72.34 B B B O3' P O5' DC DC DC 20 21 21 Y 1 -19.44 2.20 105.20 85.76 B B B O3' P OP2 DC DC DC 20 21 21 Y 1 24.18 1.10 110.50 134.68 B B B O3' P OP1 DC DC DC 20 21 21 Y 1 -25.57 1.50 119.60 94.03 B B B OP1 P OP2 DC DC DC 21 21 21 N 1 -32.67 0.90 105.70 73.03 B B B O5' P OP1 DC DC DC 21 21 21 N 1 18.26 1.20 110.70 128.96 B B B O5' P OP2 DC DC DC 21 21 21 N 1 5.22 0.30 108.30 113.52 B B B O4' C1' N1 DC DC DC 21 21 21 N 1 -37.10 1.90 104.00 66.90 B B B O3' P O5' DC DG DG 21 22 22 Y 1 28.63 1.10 110.50 139.13 B B B O3' P OP1 DC DG DG 21 22 22 Y 1 -12.51 1.50 119.60 107.09 B B B OP1 P OP2 DG DG DG 22 22 22 N 1 -33.44 0.90 105.70 72.26 B B B O5' P OP1 DG DG DG 22 22 22 N 1 11.03 1.20 110.70 121.73 B B B O5' P OP2 DG DG DG 22 22 22 N 1 4.65 0.50 113.10 117.75 B B B N7 C8 N9 DG DG DG 22 22 22 N 1 -2.96 0.40 106.40 103.44 B B B C8 N9 C4 DG DG DG 22 22 22 N 1 A A O3' C3' DC DC 1 1 0.094 0.013 1.435 1.529 N 1 B B O3' C3' DC DC 12 12 0.092 0.013 1.435 1.527 N 1 B B P OP1 DT DT 13 13 0.104 0.017 1.485 1.589 N 1 B B O5' C5' DT DT 13 13 0.096 0.016 1.440 1.536 N 1 B B O3' C3' DT DT 13 13 -0.130 0.006 1.419 1.289 N 1 B B O3' C3' DT DT 14 14 0.107 0.013 1.435 1.542 N 1 B B P O5' DC DC 20 20 0.061 0.010 1.593 1.654 N 1 B B C5' C4' DC DC 20 20 0.044 0.007 1.512 1.556 N 1 B B P O5' DG DG 22 22 0.064 0.010 1.593 1.657 N model building X-PLOR 3.1 refinement X-PLOR 3.1 phasing X-PLOR 3.1 THE SOLUTION NMR STRUCTURE OF AN (R)-A-(N6-ADENYL)-STYRENE OXIDE-RAS61 OLIGODEOXYNUCLEOTIDE MODIFIED AT THE SECOND POSITION OF THE CODON 61 REGION, MINIMIZED AVERAGE STRUCTURE 1 N N 2 N N covale 1.604 both A DC 5 A O3' DC 5 1_555 A R 6 A P R 6 1_555 covale 1.619 both A R 6 A O3' R 6 1_555 A DA 7 A P DA 7 1_555 hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 B DG 22 B N1 DG 11 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 B DG 22 B O6 DG 11 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 B DG 22 B N2 DG 11 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B DC 21 B N3 DC 10 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B DC 21 B O2 DC 10 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B DC 21 B N4 DC 10 1_555 hydrog WATSON-CRICK A DG 3 A N1 DG 3 1_555 B DC 20 B N3 DC 9 1_555 hydrog WATSON-CRICK A DG 3 A N2 DG 3 1_555 B DC 20 B O2 DC 9 1_555 hydrog WATSON-CRICK A DG 3 A O6 DG 3 1_555 B DC 20 B N4 DC 9 1_555 hydrog WATSON-CRICK A DA 4 A N1 DA 4 1_555 B DT 19 B N3 DT 8 1_555 hydrog WATSON-CRICK A DA 4 A N6 DA 4 1_555 B DT 19 B O4 DT 8 1_555 hydrog WATSON-CRICK A DC 5 A N3 DC 5 1_555 B DG 18 B N1 DG 7 1_555 hydrog WATSON-CRICK A DC 5 A N4 DC 5 1_555 B DG 18 B O6 DG 7 1_555 hydrog WATSON-CRICK A DC 5 A O2 DC 5 1_555 B DG 18 B N2 DG 7 1_555 hydrog WATSON-CRICK A R 6 A N1 R 6 1_555 B DT 17 B N3 DT 6 1_555 hydrog WATSON-CRICK A R 6 A N6 R 6 1_555 B DT 17 B O4 DT 6 1_555 hydrog WATSON-CRICK A DA 7 A N1 DA 7 1_555 B DT 16 B N3 DT 5 1_555 hydrog WATSON-CRICK A DA 7 A N6 DA 7 1_555 B DT 16 B O4 DT 5 1_555 hydrog WATSON-CRICK A DG 8 A N1 DG 8 1_555 B DC 15 B N3 DC 4 1_555 hydrog WATSON-CRICK A DG 8 A N2 DG 8 1_555 B DC 15 B O2 DC 4 1_555 hydrog WATSON-CRICK A DG 8 A O6 DG 8 1_555 B DC 15 B N4 DC 4 1_555 hydrog WATSON-CRICK A DA 9 A N1 DA 9 1_555 B DT 14 B N3 DT 3 1_555 hydrog WATSON-CRICK A DA 9 A N6 DA 9 1_555 B DT 14 B O4 DT 3 1_555 hydrog WATSON-CRICK A DA 10 A N1 DA 10 1_555 B DT 13 B N3 DT 2 1_555 hydrog WATSON-CRICK A DA 10 A N6 DA 10 1_555 B DT 13 B O4 DT 2 1_555 hydrog WATSON-CRICK A DG 11 A N1 DG 11 1_555 B DC 12 B N3 DC 1 1_555 hydrog WATSON-CRICK A DG 11 A N2 DG 11 1_555 B DC 12 B O2 DC 1 1_555 hydrog WATSON-CRICK A DG 11 A O6 DG 11 1_555 B DC 12 B N4 DC 1 1_555 DNA DNA DUPLEX, B-DNA, HUMAN N-RAS GENE, CODON 61 SEQUENCE, R-STYRENE OXIDE ADDUCT, N6-ADENINE, MAJOR GROOVE, DEOXYRIBONUCLEIC ACID, DNA 1AGK PDB 1 1AGK 1AGK PDB 2 1AGK 1 11 1AGK 1 11 1AGK A 1 1 11 12 22 1AGK 12 22 1AGK B 2 1 11 1 P 1