1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Weisenseel, J.P. Reddy, G.R. Marnett, L.J. Stone, M.P. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 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 US Chem.Res.Toxicol. CRTOEC 2140 0893-228X 15 140 152 10.1021/tx010107f 11849039 Structure of the 1,N(2)-propanodeoxyguanosine adduct in a three-base DNA hairpin loop derived from a palindrome in the Salmonella typhimurium hisD3052 gene. 2002 10.2210/pdb1la8/pdb pdb_00001la8 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 SINGLE WAVELENGTH M 1 1.0 3984.572 5'-D(*CP*GP*CP*GP*GP*TP*GP*TP*CP*CP*GP*CP*G)-3' 1 syn polymer no no (DC)(DG)(DC)(DG)(DG)(DT)(DG)(DT)(DC)(DC)(DG)(DC)(DG) CGCGGTGTCCGCG A polydeoxyribonucleotide n n n n n n n n n n n n n -12.949 1 19 A 1 A 13 -0.749 A_DC1:DG13_A 1 -0.104 0.221 0.223 -0.075 5.200 1 19 A 2 A 12 -3.053 A_DG2:DC12_A 2 2.786 -0.153 0.026 -0.123 -2.493 1 19 A 3 A 11 -2.956 A_DC3:DG11_A 3 -1.406 0.156 0.005 -0.108 11.288 1 19 A 4 A 10 2.036 A_DG4:DC10_A 4 -6.035 -0.124 -0.381 -0.123 20.103 1 19 A 5 A 9 -5.055 A_DG5:DC9_A 5 -2.590 -0.192 0.331 -0.085 2.885 37.926 A A 1 2 -12.810 A A 13 12 3.088 -8.262 -0.729 0.526 AA_DC1DG2:DC12DG13_AA 1 1.158 -1.795 37.030 1.787 1.258 4.211 36.457 A A 2 3 7.097 A A 12 11 4.246 4.429 0.028 -0.033 AA_DG2DC3:DG11DC12_AA 2 1.345 -2.155 36.172 -0.849 0.197 3.343 34.265 A A 3 4 1.439 A A 11 10 3.266 0.846 0.784 0.601 AA_DC3DG4:DC10DG11_AA 3 3.632 -6.175 34.068 0.885 -0.753 3.044 41.262 A A 4 5 5.066 A A 10 9 2.753 3.538 -1.369 0.872 AA_DG4DG5:DC9DC10_AA 4 -9.197 13.167 40.118 0.895 1.052 database_2 pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations 1 0 2002-04-17 1 1 2008-04-28 1 2 2011-07-13 1 3 2022-02-23 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name 1lae is the Solution structure of the 13-mer DNA hairpin CGCGGTXTCCGCG (X=PdG) containing the 1,N2-propanodeoxyguanosine adduct. 1lai is the Solution structure of the B-DNA duplex CGCGGTGTCCGCG. 1laq is the Solution structure of the B-DNA duplex CGCGGTXTCCGCG (X=PdG) containing the 1,N2-propanogeoxyguanosine adduct with the deoxyribose at C20 opposite PdG in the C2' endo conformation. 1LAS IS THE Solution structure of the B-DNA duplex CGCGGTXTCCGCG (X=PdG) containing the 1,N2-propanogeoxyguanosine adduct with the deoxyribose at C20 opposite PdG in the C3' endo conformation. RCSB Y RCSB 2002-03-28 REL REL This Synthetic DNA sequence was derived from the hisD3052 gene of salmonella typhimurium. sample 1 2D NOESY DQF-COSY 31P-1H COSY 2D NOESY 100 mM NaCl 6.8 ambient 303 K 100 mM NaCl 6.8 ambient 278 K Molecular Dynamics using a simulated annealing protocol 1 minimized average structure 1.8 mM DNA, 10 mM Sodium Phosphate, 100 mM NaCl, 50 uM EDTA D2O 1.8 mM DNA, 1 mM Sodium Phosphate, 100 mM NaCl, 50 uM EDTA H2O/D2O Bruker collection UXNMR 3.0 Hare, D. data analysis Felix 97.0, 2000 Borgias & James iterative matrix relaxation MARDIGRAS 3.2 Brunger refinement X-PLOR 3.8 500 Bruker DRX 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 G 5 n 5 DG 5 A T 6 n 6 DT 6 A G 7 n 7 DG 7 A T 8 n 8 DT 8 A C 9 n 9 DC 9 A C 10 n 10 DC 10 A G 11 n 11 DG 11 A C 12 n 12 DC 12 A G 13 n 13 DG 13 A author_defined_assembly 1 monomeric 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 3.67 0.30 108.30 111.97 A A A O4' C1' N1 DC DC DC 1 1 1 N 1 3.05 0.30 108.30 111.35 A A A O4' C1' N9 DG DG DG 2 2 2 N 1 4.59 0.50 113.10 117.69 A A A N7 C8 N9 DG DG DG 2 2 2 N 1 -2.54 0.40 106.40 103.86 A A A C8 N9 C4 DG DG DG 2 2 2 N 1 2.73 0.30 108.30 111.03 A A A O4' C1' N1 DC DC DC 3 3 3 N 1 2.80 0.30 108.30 111.10 A A A O4' C1' N9 DG DG DG 4 4 4 N 1 4.42 0.50 113.10 117.52 A A A N7 C8 N9 DG DG DG 4 4 4 N 1 -2.47 0.40 106.40 103.93 A A A C8 N9 C4 DG DG DG 4 4 4 N 1 2.16 0.30 108.30 110.46 A A A O4' C1' N9 DG DG DG 5 5 5 N 1 5.28 0.50 113.10 118.38 A A A N7 C8 N9 DG DG DG 5 5 5 N 1 -2.47 0.40 106.40 103.93 A A A C8 N9 C4 DG DG DG 5 5 5 N 1 4.64 0.30 108.30 112.94 A A A O4' C1' N1 DT DT DT 6 6 6 N 1 5.49 0.30 108.30 113.79 A A A O4' C1' N9 DG DG DG 7 7 7 N 1 4.45 0.50 113.10 117.55 A A A N7 C8 N9 DG DG DG 7 7 7 N 1 -2.58 0.40 106.40 103.82 A A A C8 N9 C4 DG DG DG 7 7 7 N 1 3.80 0.30 108.30 112.10 A A A O4' C1' N1 DT DT DT 8 8 8 N 1 2.75 0.30 108.30 111.05 A A A O4' C1' N1 DC DC DC 9 9 9 N 1 3.19 0.30 108.30 111.49 A A A O4' C1' N1 DC DC DC 10 10 10 N 1 3.28 0.30 108.30 111.58 A A A O4' C1' N9 DG DG DG 11 11 11 N 1 4.67 0.50 113.10 117.77 A A A N7 C8 N9 DG DG DG 11 11 11 N 1 -2.55 0.40 106.40 103.85 A A A C8 N9 C4 DG DG DG 11 11 11 N 1 2.65 0.30 108.30 110.95 A A A O4' C1' N1 DC DC DC 12 12 12 N 1 3.53 0.30 108.30 111.83 A A A O4' C1' N9 DG DG DG 13 13 13 N 1 4.48 0.50 113.10 117.58 A A A N7 C8 N9 DG DG DG 13 13 13 N 1 -2.88 0.40 106.40 103.52 A A A C8 N9 C4 DG DG DG 13 13 13 N minimized average Solution structure of the DNA hairpin 13-mer CGCGGTGTCCGCG 1 N N hydrog WATSON-CRICK A DC 1 A N3 DC 1 1_555 A DG 13 A N1 DG 13 1_555 hydrog WATSON-CRICK A DC 1 A N4 DC 1 1_555 A DG 13 A O6 DG 13 1_555 hydrog WATSON-CRICK A DC 1 A O2 DC 1 1_555 A DG 13 A N2 DG 13 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 A DC 12 A N3 DC 12 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 A DC 12 A O2 DC 12 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 A DC 12 A N4 DC 12 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 A DG 11 A N1 DG 11 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 A DG 11 A O6 DG 11 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 A DG 11 A N2 DG 11 1_555 hydrog WATSON-CRICK A DG 4 A N1 DG 4 1_555 A DC 10 A N3 DC 10 1_555 hydrog WATSON-CRICK A DG 4 A N2 DG 4 1_555 A DC 10 A O2 DC 10 1_555 hydrog WATSON-CRICK A DG 4 A O6 DG 4 1_555 A DC 10 A N4 DC 10 1_555 hydrog WATSON-CRICK A DG 5 A N1 DG 5 1_555 A DC 9 A N3 DC 9 1_555 hydrog WATSON-CRICK A DG 5 A N2 DG 5 1_555 A DC 9 A O2 DC 9 1_555 hydrog WATSON-CRICK A DG 5 A O6 DG 5 1_555 A DC 9 A N4 DC 9 1_555 DNA DNA, Hairpin, three base loop 1LA8 PDB 1 1LA8 1 13 1LA8 1 13 1LA8 A 1 1 13