1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 Ho, W.C. Steinbeck, C. Richert, C. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 1 90.00 90.00 90.00 1.000 1.000 1.000 C10 H15 N3 O4 241.244 n 5'-AMINO-5'-DEOXYTHYMIDINE 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 C11 H12 N2 O2 204.225 y TRYPTOPHAN L-peptide linking N 1 N N N 2 N N N 3 N C N 4 N C N 5 N O N 6 N N N 7 N C N 8 N O N 9 N C N 10 N C N 11 N C N 12 N C N 13 R C N 14 N O N 15 R C N 16 S C N 17 N O N 18 N H N 19 N H N 20 N H N 21 N H N 22 N H 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 O N 34 N P N 35 N O N 36 N O N 37 N O N 38 N C N 39 R C N 40 N O N 41 S C N 42 N O N 43 N C N 44 R C Y 45 N N Y 46 N C Y 47 N N Y 48 N C Y 49 N C N 50 N N Y 51 N N Y 52 N C Y 53 N N Y 54 N C N 55 N H N 56 N H 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 O N 70 N P N 71 N O N 72 N O N 73 N O N 74 N C N 75 R C N 76 N O N 77 S C N 78 N O N 79 N C N 80 R C N 81 N N N 82 N C N 83 N O N 84 N N N 85 N C N 86 N N N 87 N C N 88 N C N 89 N H N 90 N H N 91 N H N 92 N H N 93 N H 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 O N 104 N P N 105 N O N 106 N O N 107 N O N 108 N C N 109 R C N 110 N O N 111 S C N 112 N O N 113 N C N 114 R C Y 115 N N Y 116 N C Y 117 N N Y 118 N C N 119 N C N 120 N O N 121 N N N 122 N C N 123 N N N 124 N N Y 125 N C N 126 N H N 127 N H N 128 N H 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 N N 141 S C N 142 N C N 143 N O N 144 N C Y 145 N C Y 146 N C Y 147 N C Y 148 N N Y 149 N C Y 150 N C Y 151 N C Y 152 N C Y 153 N C N 154 N O N 155 N H N 156 N H N 157 N H N 158 N H N 159 N H N 160 N H N 161 N H N 162 N H N 163 N H N 164 N H N 165 N H N 166 N H N 1 N sing N 2 N sing N 3 N sing N 4 N sing N 5 N sing N 6 N sing N 7 N doub N 8 N sing N 9 N doub N 10 N sing N 11 N sing N 12 N sing N 13 N doub 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 N 24 N sing N 25 N sing N 26 N sing N 27 N sing N 28 N sing N 29 N sing N 30 N sing N 31 N sing N 32 N sing N 33 N sing N 34 N sing N 35 N sing N 36 N doub N 37 N sing N 38 N sing N 39 N sing N 40 N sing N 41 N sing 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 Y 57 N sing Y 58 N sing Y 59 N doub N 60 N sing Y 61 N sing Y 62 N sing Y 63 N doub N 64 N sing Y 65 N doub N 66 N sing N 67 N sing Y 68 N sing Y 69 N doub N 70 N sing Y 71 N sing N 72 N sing N 73 N sing N 74 N doub N 75 N sing N 76 N sing 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 N 97 N doub N 98 N sing N 99 N doub N 100 N sing N 101 N sing N 102 N sing N 103 N sing 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 sing 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 Y 130 N sing Y 131 N sing Y 132 N doub N 133 N sing Y 134 N sing N 135 N sing Y 136 N doub N 137 N doub N 138 N sing 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 sing N 146 N sing N 147 N sing N 148 N sing N 149 N sing N 150 N sing N 151 N sing N 152 N doub N 153 N sing N 154 N sing N 155 N sing N 156 N sing Y 157 N doub Y 158 N sing Y 159 N sing N 160 N sing Y 161 N doub Y 162 N sing Y 163 N sing N 164 N sing Y 165 N sing Y 166 N doub N 167 N sing Y 168 N doub N 169 N sing Y 170 N sing N 171 N sing N 172 N sing N 173 N sing US Biochemistry BICHAW 0033 0006-2960 38 12597 12606 10.1021/bi991169w 10504228 Solution structure of the aminoacyl-capped oligodeoxyribonucleotide duplex (W-TGCGCAC)(2). 1999 10.2210/pdb1c95/pdb pdb_00001c95 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 2017.435 5'-D((5AT)TP*GP*CP*GP*CP*AP*C)-3' 2 syn polymer 204.225 TRYPTOPHAN 2 syn non-polymer no yes (5AT)(DG)(DC)(DG)(DC)(DA)(DC) TGCGCAC A,B polydeoxyribonucleotide n n n n n n n -8.003 1 20 A 1 B 6 -0.164 A_5AT1:DA6_B 1 -9.557 -0.059 0.323 -0.264 -2.850 1 19 A 2 B 5 0.823 A_DG2:DC5_B 2 -15.797 -0.543 0.051 -0.268 -3.281 1 19 A 3 B 4 -9.499 A_DC3:DG4_B 3 20.493 0.260 -0.729 -0.413 2.641 1 19 A 4 B 3 -9.722 A_DG4:DC3_B 4 21.305 -0.168 -0.762 -0.403 3.294 1 19 A 5 B 2 1.758 A_DC5:DG2_B 5 -13.630 0.694 -0.090 -0.316 8.602 1 20 A 6 B 1 -1.803 A_DA6:5AT1_B 6 -10.888 0.259 0.342 -0.241 3.498 44.355 A A 1 2 3.280 B B 6 5 3.338 2.474 0.512 2.726 AA_5AT1DG2:DC5DA6_BB 1 2.262 -2.999 44.234 3.370 -0.458 3.949 37.118 A A 2 3 4.925 B B 5 4 3.809 3.131 -0.118 1.865 AA_DG2DC3:DG4DC5_BB 2 -1.854 2.917 36.945 2.433 -0.109 3.827 37.862 A A 3 4 18.625 B B 4 3 3.479 11.895 -0.004 1.689 AA_DC3DG4:DC3DG4_BB 3 0.126 -0.198 36.010 0.851 0.024 3.963 36.941 A A 4 5 5.510 B B 3 2 3.802 3.484 0.218 1.872 AA_DG4DC5:DG2DC3_BB 4 2.325 -3.677 36.711 2.395 0.030 3.714 45.306 A A 5 6 7.897 B B 2 1 3.383 6.062 -0.614 2.544 AA_DC5DA6:5AT1DG2_BB 5 -3.371 4.392 44.799 2.715 0.470 database_2 pdbx_nmr_software pdbx_struct_assembly pdbx_struct_oper_list struct_conn struct_site chem_comp_atom chem_comp_bond repository Initial release Version format compliance Version format compliance Data collection Database references Derived calculations Data collection 1 0 1999-10-08 1 1 2008-04-27 1 2 2011-07-13 1 3 2022-02-16 1 4 2024-05-22 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_nmr_software.name _struct_conn.pdbx_dist_value _struct_conn.pdbx_leaving_atom_flag _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id RCSB Y RCSB 1999-07-31 REL TRP TRYPTOPHAN CONSTRAINTS WERE GENERATED USING STANDARD 2D HOMONUCLEAR TECHNIQUES. 1 2D NOESY DQF-COSY TOCSY 2D NOESY 160 mM 7 AMBIENT 283 K 160 mM 7 AMBIENT 283 K SEE TABLE 5 IN PAPER TORSION-ANGLE MOLECULAR DYNAMICS FOLLOWED BY CARTESIAN MOLECULAR DYNAMICS 1 lowest energy 4 MM TRP-TGCGCAC IN 150 MM NACL AND 10 MM PHOSPHATE BUFFER (KH2PO4/K2HPO4) AT PH 7.0 (UNCORRECTED FOR DEUTERIUM EFFECT) 4 MM TRP-TGCGCAC IN 150 MM NACL AND 10 MM PHOSPHATE BUFFER (KH2PO4/K2HPO4) AT PH 7.0 (UNCORRECTED FOR DEUTERIUM EFFECT) RUBEN, D. ET AL. (MIT BITTER LABS) collection RNMR 1998 BRUKER collection XwinNMR 1998 MARC-ANDRE' DELSUC, MONTPELLIER, FRANCE data analysis Gifa 4.10 BRUENGER, A.; GROSSE-KUNSTLEVE, R.W. ET AL.; YALE UNIVERSITY structure solution CNS 0.4 BRUENGER, A., ET AL. YALE UNIVERSITY refinement X-PLOR 3.1 500 MIT-BUILT 750 MIT-BUILT 600 Bruker DRX 300 Bruker DPX TRP 0 2 TRP TRP 0 A TRP 0 2 TRP TRP 0 B 5AT 1 n 1 5AT 1 A DG 2 n 2 DG 2 A DC 3 n 3 DC 3 A DG 4 n 4 DG 4 A DC 5 n 5 DC 5 A DA 6 n 6 DA 6 A DC 7 n 7 DC 7 A 5AT 1 n 1 5AT 1 B DG 2 n 2 DG 2 B DC 3 n 3 DC 3 B DG 4 n 4 DG 4 B DC 5 n 5 DC 5 B DA 6 n 6 DA 6 B DC 7 n 7 DC 7 B author_defined_assembly 2 dimeric A 5AT 1 5'-AMINO-5'-DEOXYTHYMIDINE A 5AT 1 DT B 5AT 1 5'-AMINO-5'-DEOXYTHYMIDINE B 5AT 1 DT 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 Solution structure of the aminoacyl-capped oligodeoxyribonucleotide duplex TRP-D(TGCGCAC)2 1 N N 1 N N 2 N N 2 N N covale 1.334 one A TRP 0 C C TRP 1_555 A 5AT 1 A N5' 5AT 1 1_555 covale 1.608 both A 5AT 1 A O3' 5AT 1 1_555 A DG 2 A P DG 2 1_555 covale 1.334 one B TRP 0 D C TRP 1_555 B 5AT 1 B N5' 5AT 1 1_555 covale 1.608 both B 5AT 1 B O3' 5AT 1 1_555 B DG 2 B P DG 2 1_555 hydrog WATSON-CRICK A 5AT 1 A N3 5AT 1 1_555 B DA 6 B N1 DA 6 1_555 hydrog WATSON-CRICK A 5AT 1 A O4 5AT 1 1_555 B DA 6 B N6 DA 6 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B DC 5 B N3 DC 5 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B DC 5 B O2 DC 5 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B DC 5 B N4 DC 5 1_555 hydrog WATSON-CRICK A DC 3 A N3 DC 3 1_555 B DG 4 B N1 DG 4 1_555 hydrog WATSON-CRICK A DC 3 A N4 DC 3 1_555 B DG 4 B O6 DG 4 1_555 hydrog WATSON-CRICK A DC 3 A O2 DC 3 1_555 B DG 4 B N2 DG 4 1_555 hydrog WATSON-CRICK A DG 4 A N1 DG 4 1_555 B DC 3 B N3 DC 3 1_555 hydrog WATSON-CRICK A DG 4 A N2 DG 4 1_555 B DC 3 B O2 DC 3 1_555 hydrog WATSON-CRICK A DG 4 A O6 DG 4 1_555 B DC 3 B N4 DC 3 1_555 hydrog WATSON-CRICK A DC 5 A N3 DC 5 1_555 B DG 2 B N1 DG 2 1_555 hydrog WATSON-CRICK A DC 5 A N4 DC 5 1_555 B DG 2 B O6 DG 2 1_555 hydrog WATSON-CRICK A DC 5 A O2 DC 5 1_555 B DG 2 B N2 DG 2 1_555 hydrog WATSON-CRICK A DA 6 A N1 DA 6 1_555 B 5AT 1 B N3 5AT 1 1_555 hydrog WATSON-CRICK A DA 6 A N6 DA 6 1_555 B 5AT 1 B O4 5AT 1 1_555 DNA DOUBLE HELIX, Aminoacyl-Capped DNA, DNA 1C95 PDB 1 1C95 1 7 1C95 1 7 1C95 A 1 1 7 1 7 1C95 1 7 1C95 B 1 1 7 BINDING SITE FOR RESIDUE TRP A 0 A TRP 0 Software 2 BINDING SITE FOR RESIDUE TRP B 0 B TRP 0 Software 2 A 5AT 1 A 5AT 1 2 1_555 B DA 6 B DA 6 2 1_555 A DA 6 A DA 6 2 1_555 B 5AT 1 B 5AT 1 2 1_555