0.034371 0.000000 0.000000 0.000000 0.018970 0.000000 0.000000 0.000000 0.024886 0.000000 0.000000 0.000000 Yang, X.-L. Robinson, H. Gao, Y.-G. Wang, A.H.-J. http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic 16 90.00 90.00 90.00 29.094 52.714 40.183 C14 H8 O2 208.212 1,4-BIS-[2-(2-HYDROXY-ETHYLAMINO)-ETHYLAMINO]-ANTHRAQUINONE non-polymer Co 2 58.933 COBALT (II) ION non-polymer 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 H2 O 18.015 WATER non-polymer Mg 2 24.305 MAGNESIUM ION non-polymer US Biochemistry BICHAW 0033 0006-2960 39 10950 10957 10.1021/bi001319z 10998231 Binding of a macrocyclic bisacridine and ametantrone to CGTACG involves similar unusual intercalation platforms. 2000 10.2210/pdb1fdg/pdb pdb_00001fdg 1.000000 0.000000 0.000000 0.000000 1.000000 0.000000 0.000000 0.000000 1.000000 0.00000 0.00000 0.00000 110 1 CCD 1999-08-28 CUSTOM-MADE SINGLE WAVELENGTH M x-ray 1 0.7251 1.0 19-ID APS 0.7251 SYNCHROTRON APS BEAMLINE 19-ID 1809.217 DNA (5'-D(*CP*GP*TP*AP*CP*G)-3') 2 syn polymer 58.933 COBALT (II) ION 2 syn non-polymer 208.212 1,4-BIS-[2-(2-HYDROXY-ETHYLAMINO)-ETHYLAMINO]-ANTHRAQUINONE 1 syn non-polymer 24.305 MAGNESIUM ION 1 syn non-polymer 18.015 water 27 nat water no no (DC)(DG)(DT)(DA)(DC)(DG) CGTACG A,B polydeoxyribonucleotide n n n n n n 1 2.04 39.67 VAPOR DIFFUSION, SITTING DROP 6.0 MPD, sodium cacodylate buffer, magnesium chloride, cobalt chloride, spermine, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K 298 -8.667 1 19 A 2 B 11 2.134 A_DG2:DC11_B 1 4.576 -0.328 -0.128 -0.142 1.843 1 20 A 3 B 10 2.866 A_DT3:DA10_B 2 -0.724 0.209 0.082 -0.057 -2.735 1 20 A 4 B 9 -0.944 A_DA4:DT9_B 3 0.947 0.388 -0.358 -0.080 14.681 1 19 A 5 B 8 -0.544 A_DC5:DG8_B 4 -5.606 0.177 0.026 0.077 3.056 27.852 A A 2 3 8.655 B B 11 10 3.141 4.145 -0.093 -0.317 AA_DG2DT3:DA10DC11_BB 1 -2.645 5.524 27.423 -1.604 -0.411 3.312 35.995 A A 3 4 4.729 B B 10 9 3.382 2.915 -0.200 -0.330 AA_DT3DA4:DT9DA10_BB 2 3.548 -5.756 35.711 -0.960 0.842 2.569 28.491 A A 4 5 7.004 B B 9 8 2.939 3.412 0.847 -0.839 AA_DA4DC5:DG8DT9_BB 3 -6.244 12.817 27.606 -2.372 -2.942 database_2 pdbx_entity_src_syn pdbx_struct_conn_angle struct_conn struct_site repository Initial release Version format compliance Version format compliance Database references Derived calculations Source and taxonomy 1 0 2000-08-07 1 1 2008-04-27 1 2 2011-07-13 1 3 2022-09-14 _database_2.pdbx_DOI _database_2.pdbx_database_accession _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.value _struct_conn.pdbx_dist_value _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_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id Bisacridine/CGTACG complex in same crystal lattice RCSB Y RCSB 2000-07-20 REL REL CO COBALT (II) ION 9TA 1,4-BIS-[2-(2-HYDROXY-ETHYLAMINO)-ETHYLAMINO]-ANTHRAQUINONE MG MAGNESIUM ION HOH water synthetic DNA moleclue 32630 synthetic construct sample CO5 21 2 CO CO 21 A TMR 13 3 9TA 9TA 13 B MG2 23 4 MG MG 23 B NCO 22 2 CO CO 22 B HOH 101 5 HOH HOH 101 A HOH 104 5 HOH HOH 104 A HOH 105 5 HOH HOH 105 A HOH 107 5 HOH HOH 107 A HOH 108 5 HOH HOH 108 A HOH 109 5 HOH HOH 109 A HOH 113 5 HOH HOH 113 A HOH 114 5 HOH HOH 114 A HOH 119 5 HOH HOH 119 A HOH 120 5 HOH HOH 120 A CO5 21 5 HOH HOH 123 A CO5 21 5 HOH HOH 124 A CO5 21 5 HOH HOH 125 A CO5 21 5 HOH HOH 126 A CO5 21 5 HOH HOH 127 A HOH 102 5 HOH HOH 102 B HOH 103 5 HOH HOH 103 B HOH 106 5 HOH HOH 106 B HOH 110 5 HOH HOH 110 B HOH 111 5 HOH HOH 111 B HOH 112 5 HOH HOH 112 B HOH 115 5 HOH HOH 115 B HOH 116 5 HOH HOH 116 B HOH 117 5 HOH HOH 117 B HOH 118 5 HOH HOH 118 B NCO 22 5 HOH HOH 121 B NCO 22 5 HOH HOH 122 B C 1 n 1 DC 1 A G 2 n 2 DG 2 A T 3 n 3 DT 3 A A 4 n 4 DA 4 A C 5 n 5 DC 5 A G 6 n 6 DG 6 A C 7 n 1 DC 7 B G 8 n 2 DG 8 B T 9 n 3 DT 9 B A 10 n 4 DA 10 B C 11 n 5 DC 11 B G 12 n 6 DG 12 B author_defined_assembly 2 dimeric A DG 2 A N7 DG 2 1_555 A CO 21 C CO CO 1_555 A HOH 123 G O HOH 1_555 87.9 A DG 2 A N7 DG 2 1_555 A CO 21 C CO CO 1_555 A HOH 124 G O HOH 1_555 92.6 A HOH 123 G O HOH 1_555 A CO 21 C CO CO 1_555 A HOH 124 G O HOH 1_555 90.1 A DG 2 A N7 DG 2 1_555 A CO 21 C CO CO 1_555 A HOH 125 G O HOH 1_555 87.3 A HOH 123 G O HOH 1_555 A CO 21 C CO CO 1_555 A HOH 125 G O HOH 1_555 89.6 A HOH 124 G O HOH 1_555 A CO 21 C CO CO 1_555 A HOH 125 G O HOH 1_555 179.7 A DG 2 A N7 DG 2 1_555 A CO 21 C CO CO 1_555 A HOH 126 G O HOH 1_555 90.4 A HOH 123 G O HOH 1_555 A CO 21 C CO CO 1_555 A HOH 126 G O HOH 1_555 178.3 A HOH 124 G O HOH 1_555 A CO 21 C CO CO 1_555 A HOH 126 G O HOH 1_555 90.0 A HOH 125 G O HOH 1_555 A CO 21 C CO CO 1_555 A HOH 126 G O HOH 1_555 90.3 A DG 2 A N7 DG 2 1_555 A CO 21 C CO CO 1_555 A HOH 127 G O HOH 1_555 176.9 A HOH 123 G O HOH 1_555 A CO 21 C CO CO 1_555 A HOH 127 G O HOH 1_555 90.9 A HOH 124 G O HOH 1_555 A CO 21 C CO CO 1_555 A HOH 127 G O HOH 1_555 90.2 A HOH 125 G O HOH 1_555 A CO 21 C CO CO 1_555 A HOH 127 G O HOH 1_555 89.8 A HOH 126 G O HOH 1_555 A CO 21 C CO CO 1_555 A HOH 127 G O HOH 1_555 90.8 B DG 12 B N7 DG 6 1_555 B CO 22 F CO CO 1_555 B HOH 121 H O HOH 1_555 88.5 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 B MG 23 E MG 1 B CO 22 F CO 1 A O5' DC 1 A O5' DC 1 1 Y 1 A C5' DC 1 A C5' DC 1 1 Y 1 A C4' DC 1 A C4' DC 1 1 Y 1 A O4' DC 1 A O4' DC 1 1 Y 1 A C3' DC 1 A C3' DC 1 1 Y 1 A C2' DC 1 A C2' DC 1 1 Y 1 A C1' DC 1 A C1' DC 1 1 Y 1 A N1 DC 1 A N1 DC 1 1 Y 1 A C2 DC 1 A C2 DC 1 1 Y 1 A O2 DC 1 A O2 DC 1 1 Y 1 A N3 DC 1 A N3 DC 1 1 Y 1 A C4 DC 1 A C4 DC 1 1 Y 1 A N4 DC 1 A N4 DC 1 1 Y 1 A C5 DC 1 A C5 DC 1 1 Y 1 A C6 DC 1 A C6 DC 1 1 Y 1 B B CO O CO HOH 22 122 1.46 1 B B O O HOH HOH 121 122 2.18 1 A DG 2 0.068 SIDE CHAIN 1 A DG 6 0.059 SIDE CHAIN 1 B DG 12 0.050 SIDE CHAIN 1 3.08 0.50 110.60 113.68 A A A C2 N3 C4 DA DA DA 4 4 4 N 1 3.81 0.60 118.90 122.71 B B B N1 C2 O2 DC DC DC 11 11 11 N 1 -5.17 0.60 119.90 114.73 B B B N1 C6 O6 DG DG DG 12 12 12 N 0.3140000 0.2490000 0.2640000 1.6 20 166 4028 3272 random 1 4 2 G.PARKINSON, J.VOJTECHOVSKY, L.CLOWNEY, A.T.BRUNGER, H.M.BERMAN 1.6 20 20 271 26 225 0 0.008 1.7 28.3 1.6 80 1FDG 57036 57036 0 0 0.0520000 1 32.5 6.8 99.2 0.5230000 1.60 1.66 423 7.2 99.5 phasing AMoRE refinement SHELXL-97 data reduction d*TREK data scaling HKL-2000 BINDING OF A MACROCYCLIC BISACRIDINE AND AMETANTRONE TO CGTACG INVOLVES SIMILAR UNUSUAL INTERCALATION PLATFORMS (AMETANTRONE COMPLEX) 1 N N 1 N N 2 N N 3 N N 4 N N 2 N N 5 N N 5 N N metalc 2.203 A DG 2 A N7 DG 2 1_555 A CO 21 C CO CO 1_555 metalc 1.988 A CO 21 C CO CO 1_555 A HOH 123 G O HOH 1_555 metalc 1.995 A CO 21 C CO CO 1_555 A HOH 124 G O HOH 1_555 metalc 2.001 A CO 21 C CO CO 1_555 A HOH 125 G O HOH 1_555 metalc 1.994 A CO 21 C CO CO 1_555 A HOH 126 G O HOH 1_555 metalc 1.996 A CO 21 C CO CO 1_555 A HOH 127 G O HOH 1_555 metalc 2.159 B DG 12 B N7 DG 6 1_555 B CO 22 F CO CO 1_555 metalc 1.792 B CO 22 F CO CO 1_555 B HOH 121 H O HOH 1_555 hydrog WATSON-CRICK A DG 2 A N1 DG 2 1_555 B DC 11 B N3 DC 5 1_555 hydrog WATSON-CRICK A DG 2 A N2 DG 2 1_555 B DC 11 B O2 DC 5 1_555 hydrog WATSON-CRICK A DG 2 A O6 DG 2 1_555 B DC 11 B N4 DC 5 1_555 hydrog WATSON-CRICK A DT 3 A N3 DT 3 1_555 B DA 10 B N1 DA 4 1_555 hydrog WATSON-CRICK A DT 3 A O4 DT 3 1_555 B DA 10 B N6 DA 4 1_555 hydrog WATSON-CRICK A DA 4 A N1 DA 4 1_555 B DT 9 B N3 DT 3 1_555 hydrog WATSON-CRICK A DA 4 A N6 DA 4 1_555 B DT 9 B O4 DT 3 1_555 hydrog WATSON-CRICK A DC 5 A N3 DC 5 1_555 B DG 8 B N1 DG 2 1_555 hydrog WATSON-CRICK A DC 5 A N4 DC 5 1_555 B DG 8 B O6 DG 2 1_555 hydrog WATSON-CRICK A DC 5 A O2 DC 5 1_555 B DG 8 B N2 DG 2 1_555 DNA High resolution crystal structure, intercalation platform, MAD, anticancer drug, drug-DNA complex, metal ions, tertiary base pairs, DNA 1FDG PDB 1 1FDG 1 6 1FDG 1 6 1FDG A 1 1 6 7 12 1FDG 7 12 1FDG B 1 1 6 BINDING SITE FOR RESIDUE 9TA B 13 B 9TA 13 Software 7 BINDING SITE FOR RESIDUE MG B 23 B MG 23 Software 2 BINDING SITE FOR RESIDUE CO B 22 B CO 22 Software 6 BINDING SITE FOR RESIDUE CO A 21 A CO 21 Software 6 A DC 5 A DC 5 7 2_655 A DC 5 A DC 5 7 1_555 A DG 6 A DG 6 7 1_555 A DG 6 A DG 6 7 2_655 B DG 8 B DG 2 7 2_655 B DG 8 B DG 2 7 1_555 B HOH 116 H HOH 7 3_656 B DG 8 B DG 2 2 4_556 B DG 8 B DG 2 2 1_555 B DG 12 B DG 6 6 1_555 B DG 12 B DG 6 6 3_755 B HOH 121 H HOH 6 1_555 B HOH 121 H HOH 6 3_755 B HOH 122 H HOH 6 1_555 B HOH 122 H HOH 6 3_755 A DG 2 A DG 2 6 1_555 A HOH 123 G HOH 6 1_555 A HOH 124 G HOH 6 1_555 A HOH 125 G HOH 6 1_555 A HOH 126 G HOH 6 1_555 A HOH 127 G HOH 6 1_555 21 C 2 2 2