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/pdb1agz/pdb pdb_00001agz 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-RAS61-3 DNA ADDUCT 3536.411 DNA (5'-D(*CP*GP*GP*AP*CP*AP*RP*GP*AP*AP*G)-3') 1 syn polymer (R)-(N6-ADENYL)-STYRENE OXIDE-RAS61-3 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)(DA)(R)(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 12.722 1 19 A 1 B 22 4.549 A_DC1:DG22_B 1 -17.379 0.773 -0.669 -0.541 -0.711 1 19 A 2 B 21 0.467 A_DG2:DC21_B 2 -10.463 -0.843 0.064 -0.361 -6.416 1 19 A 3 B 20 0.269 A_DG3:DC20_B 3 -8.917 -0.730 -0.274 -0.258 1.036 1 20 A 4 B 19 -1.306 A_DA4:DT19_B 4 -11.005 0.281 0.069 -0.101 4.156 1 19 A 5 B 18 -1.525 A_DC5:DG18_B 5 -8.158 0.735 -0.091 -0.273 3.815 1 20 A 6 B 17 -4.701 A_DA6:DT17_B 6 -0.420 0.111 0.088 -0.218 -1.173 1 20 A 7 B 16 2.123 A_R7:DT16_B 7 -16.644 -0.279 -0.146 -0.091 -6.139 1 19 A 8 B 15 2.476 A_DG8:DC15_B 8 -0.343 -0.791 -0.234 -0.209 6.027 1 20 A 9 B 14 -5.757 A_DA9:DT14_B 9 -9.944 0.242 -0.304 -0.155 9.565 1 20 A 10 B 13 -2.638 A_DA10:DT13_B 10 -6.579 0.464 0.076 -0.141 21.480 1 19 A 11 B 12 5.108 A_DG11:DC12_B 11 2.101 -0.946 0.579 -0.221 3.657 28.130 A A 1 2 12.730 B B 22 21 3.742 6.093 -0.485 -0.074 AA_DC1DG2:DC21DG22_BB 1 -5.990 12.515 26.826 -1.808 -0.630 3.637 36.335 A A 2 3 -6.141 B B 21 20 3.605 -3.823 -0.371 -0.506 AA_DG2DG3:DC20DC21_BB 2 0.132 -0.213 36.140 -0.220 0.615 2.919 39.218 A A 3 4 2.114 B B 20 19 2.936 1.419 0.324 -0.259 AA_DG3DA4:DT19DC20_BB 3 -0.724 1.079 39.187 -0.538 -0.559 3.194 35.234 A A 4 5 -6.581 B B 19 18 3.096 -3.975 0.022 -1.071 AA_DA4DC5:DG18DT19_BB 4 0.971 -1.608 35.003 -1.199 0.102 3.707 32.804 A A 5 6 -11.949 B B 18 17 3.553 -6.676 -0.664 -0.837 AA_DC5DA6:DT17DG18_BB 5 -5.191 9.291 31.724 -0.187 0.168 3.446 31.105 A A 6 7 0.405 B B 17 16 3.401 0.217 0.888 -1.166 AA_DA6R7:DT16DT17_BB 6 2.178 -4.064 31.030 -2.217 -1.220 2.814 27.959 A A 7 8 13.050 B B 16 15 3.166 6.253 -0.209 -1.277 AA_R7DG8:DC15DT16_BB 7 -1.000 2.086 27.247 -4.018 0.213 2.980 39.510 A A 8 9 7.069 B B 15 14 3.005 4.767 -0.536 0.036 AA_DG8DA9:DT14DC15_BB 8 0.666 -0.987 39.227 -0.462 0.865 2.626 31.666 A A 9 10 15.852 B B 14 13 2.987 8.546 0.668 -0.861 AA_DA9DA10:DT13DT14_BB 9 -1.293 2.399 30.493 -2.958 -1.433 2.279 28.102 A A 10 11 14.923 B B 13 12 2.697 7.143 0.319 -1.024 AA_DA10DG11:DC12DT13_BB 10 -4.197 8.768 26.877 -3.415 -1.425 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 1997-03-26 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 A 6 n 6 DA 6 A R 7 n 7 R 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 7 A R 7 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 2.93 0.30 108.30 111.23 A A A O4' C1' N1 DC DC DC 1 1 1 N 1 2.83 0.30 108.30 111.13 A A A O4' C1' N9 DG DG DG 2 2 2 N 1 4.46 0.50 113.10 117.56 A A A N7 C8 N9 DG DG DG 2 2 2 N 1 -2.57 0.40 106.40 103.83 A A A C8 N9 C4 DG DG DG 2 2 2 N 1 3.22 0.30 108.30 111.52 A A A O4' C1' N9 DG DG DG 3 3 3 N 1 4.42 0.50 113.10 117.52 A A A N7 C8 N9 DG DG DG 3 3 3 N 1 -2.71 0.40 106.40 103.69 A A A C8 N9 C4 DG DG DG 3 3 3 N 1 2.70 0.30 108.30 111.00 A A A O4' C1' N9 DA DA DA 4 4 4 N 1 3.63 0.50 113.80 117.43 A A A N7 C8 N9 DA DA DA 4 4 4 N 1 2.99 0.30 108.30 111.29 A A A O4' C1' N1 DC DC DC 5 5 5 N 1 2.00 0.30 108.30 110.30 A A A O4' C1' N9 DA DA DA 6 6 6 N 1 3.78 0.50 113.80 117.58 A A A N7 C8 N9 DA DA DA 6 6 6 N 1 2.56 0.30 108.30 110.86 A A A O4' C1' N9 DG DG DG 8 8 8 N 1 4.39 0.50 113.10 117.49 A A A N7 C8 N9 DG DG DG 8 8 8 N 1 -2.87 0.40 106.40 103.53 A A A C8 N9 C4 DG DG DG 8 8 8 N 1 3.41 0.30 108.30 111.71 A A A O4' C1' N9 DA DA DA 9 9 9 N 1 3.66 0.50 113.80 117.46 A A A N7 C8 N9 DA DA DA 9 9 9 N 1 3.54 0.30 108.30 111.84 A A A O4' C1' N9 DA DA DA 10 10 10 N 1 3.65 0.50 113.80 117.45 A A A N7 C8 N9 DA DA DA 10 10 10 N 1 3.17 0.30 108.30 111.47 A A A O4' C1' N9 DG DG DG 11 11 11 N 1 4.42 0.50 113.10 117.52 A A A N7 C8 N9 DG DG DG 11 11 11 N 1 -2.62 0.40 106.40 103.78 A A A C8 N9 C4 DG DG DG 11 11 11 N 1 3.29 0.30 108.30 111.59 B B B O4' C1' N1 DC DC DC 12 12 12 N 1 -36.80 1.90 104.00 67.20 B B B O3' P O5' DC DT DT 12 13 13 Y 1 27.27 1.10 110.50 137.77 B B B O3' P OP1 DC DT DT 12 13 13 Y 1 -13.41 1.50 119.60 106.19 B B B OP1 P OP2 DT DT DT 13 13 13 N 1 -34.80 0.90 105.70 70.90 B B B O5' P OP1 DT DT DT 13 13 13 N 1 12.26 1.20 110.70 122.96 B B B O5' P OP2 DT DT DT 13 13 13 N 1 2.91 0.30 108.30 111.21 B B B O4' C1' N1 DT DT DT 13 13 13 N 1 -4.09 0.60 122.90 118.81 B B B C6 C5 C7 DT DT DT 13 13 13 N 1 3.17 0.30 108.30 111.47 B B B O4' C1' N1 DT DT DT 14 14 14 N 1 -3.72 0.60 122.90 119.18 B B B C6 C5 C7 DT DT DT 14 14 14 N 1 2.19 0.30 108.30 110.49 B B B O4' C1' N1 DC DC DC 15 15 15 N 1 3.55 0.30 108.30 111.85 B B B O4' C1' N1 DT DT DT 16 16 16 N 1 -3.73 0.60 122.90 119.17 B B B C6 C5 C7 DT DT DT 16 16 16 N 1 2.78 0.30 108.30 111.08 B B B O4' C1' N1 DT DT DT 17 17 17 N 1 -3.67 0.60 122.90 119.23 B B B C6 C5 C7 DT DT DT 17 17 17 N 1 3.55 0.30 108.30 111.85 B B B O4' C1' N9 DG DG DG 18 18 18 N 1 4.24 0.50 113.10 117.34 B B B N7 C8 N9 DG DG DG 18 18 18 N 1 -2.52 0.40 106.40 103.88 B B B C8 N9 C4 DG DG DG 18 18 18 N 1 3.20 0.30 108.30 111.50 B B B O4' C1' N1 DT DT DT 19 19 19 N 1 2.91 0.30 108.30 111.21 B B B O4' C1' N1 DC DC DC 20 20 20 N 1 2.70 0.30 108.30 111.00 B B B O4' C1' N1 DC DC DC 21 21 21 N 1 3.28 0.30 108.30 111.58 B B B O4' C1' N9 DG DG DG 22 22 22 N 1 4.37 0.50 113.10 117.47 B B B N7 C8 N9 DG DG DG 22 22 22 N 1 -2.54 0.40 106.40 103.86 B B B C8 N9 C4 DG DG DG 22 22 22 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 THIRD POSITION OF THE CODON 61 REGION, MINIMIZED AVERAGE STRUCTURE 1 N N 2 N N covale 1.608 both A DA 6 A O3' DA 6 1_555 A R 7 A P R 7 1_555 covale 1.604 both A R 7 A O3' R 7 1_555 A DG 8 A P DG 8 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 DA 6 A N1 DA 6 1_555 B DT 17 B N3 DT 6 1_555 hydrog WATSON-CRICK A DA 6 A N6 DA 6 1_555 B DT 17 B O4 DT 6 1_555 hydrog WATSON-CRICK A R 7 A N1 R 7 1_555 B DT 16 B N3 DT 5 1_555 hydrog WATSON-CRICK A R 7 A N6 R 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 1AGZ PDB 1 1AGZ 1AGZ PDB 2 1AGZ 1 11 1AGZ 1 11 1AGZ A 1 1 11 12 22 1AGZ 12 22 1AGZ B 2 1 11 1 P 1