data_A1BDP # _chem_comp.id A1BDP _chem_comp.name "(6aS,7S,10aS)-9-carbamoyl-7-(dimethylamino)-8,10a,12-trihydroxy-5-methyl-10,11-dioxo-6,6a,7,10,10a,11-hexahydrotetracen-1-yl pyrimidine-2-carboxylate" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C27 H24 N4 O8" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-10-15 _chem_comp.pdbx_modified_date 2025-02-28 _chem_comp.pdbx_ambiguous_flag N _chem_comp.pdbx_release_status REL _chem_comp.pdbx_replaced_by ? _chem_comp.pdbx_replaces ? _chem_comp.formula_weight 532.501 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1BDP _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag N _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 9DRH _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site RCSB _chem_comp.pdbx_pcm ? # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.alt_atom_id _chem_comp_atom.type_symbol _chem_comp_atom.charge _chem_comp_atom.pdbx_align _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_leaving_atom_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_c_terminal_atom_flag _chem_comp_atom.model_Cartn_x _chem_comp_atom.model_Cartn_y _chem_comp_atom.model_Cartn_z _chem_comp_atom.pdbx_model_Cartn_x_ideal _chem_comp_atom.pdbx_model_Cartn_y_ideal _chem_comp_atom.pdbx_model_Cartn_z_ideal _chem_comp_atom.pdbx_component_atom_id _chem_comp_atom.pdbx_component_comp_id _chem_comp_atom.pdbx_ordinal A1BDP C1 C1 C 0 1 N N N N N N 20.133 -47.091 17.319 3.288 -1.240 -1.410 C1 A1BDP 1 A1BDP C2 C2 C 0 1 N N N N N N 21.023 -47.947 16.548 3.596 -1.678 -0.045 C2 A1BDP 2 A1BDP C3 C3 C 0 1 N N N N N N 22.132 -47.368 15.999 3.379 -0.831 1.014 C3 A1BDP 3 A1BDP C4 C4 C 0 1 N N S N N N 22.563 -45.941 16.308 2.818 0.549 0.842 C4 A1BDP 4 A1BDP C5 C5 C 0 1 N N N N N N 21.697 -44.587 18.248 2.298 2.384 -0.767 C5 A1BDP 5 A1BDP C6 C6 C 0 1 Y N N N N N 21.240 -42.361 19.326 0.045 3.257 -0.284 C6 A1BDP 6 A1BDP O1 O1 O 0 1 N N N N N N 19.520 -47.421 18.312 3.662 -1.878 -2.372 O1 A1BDP 7 A1BDP C10 C7 C 0 1 Y N N N N N 18.021 -40.424 19.576 -3.369 1.742 -0.241 C10 A1BDP 8 A1BDP C11 C8 C 0 1 Y N N N N N 18.559 -42.611 18.543 -1.173 0.752 -0.708 C11 A1BDP 9 A1BDP C12 C9 C 0 1 N N N N N N 18.981 -44.783 17.497 1.047 -0.240 -1.181 C12 A1BDP 10 A1BDP C13 C10 C 0 1 N N N N N N 15.591 -40.064 19.933 -4.071 -0.287 0.599 C13 A1BDP 11 A1BDP C15 C11 C 0 1 Y N N N N N 14.950 -38.575 19.872 -4.619 -1.655 0.416 C15 A1BDP 12 A1BDP C17 C12 C 0 1 Y N N N N N 14.656 -36.529 18.744 -5.497 -3.249 -0.990 C17 A1BDP 13 A1BDP C18 C13 C 0 1 Y N N N N N 13.836 -36.020 19.761 -5.607 -4.120 0.086 C18 A1BDP 14 A1BDP C19 C14 C 0 1 Y N N N N N 13.614 -36.891 20.841 -5.187 -3.685 1.336 C19 A1BDP 15 A1BDP C1A C15 C 0 1 Y N N N N N 18.957 -41.449 19.257 -1.970 1.861 -0.368 C1A A1BDP 16 A1BDP C1B C16 C 0 1 Y N N N N N 19.458 -43.607 18.232 0.210 0.916 -0.830 C1B A1BDP 17 A1BDP C1C C17 C 0 1 N N S N N N 20.012 -45.672 16.794 2.483 0.031 -1.579 C1C A1BDP 18 A1BDP C21 C18 C 0 1 N N N N N N 20.745 -49.386 16.378 4.136 -3.027 0.190 C21 A1BDP 19 A1BDP C41 C19 C 0 1 N N S N N N 21.407 -45.041 16.815 3.046 1.064 -0.579 C41 A1BDP 20 A1BDP C42 C20 C 0 1 N N N N N N 23.062 -45.848 13.843 2.957 1.253 3.155 C42 A1BDP 21 A1BDP C43 C21 C 0 1 N N N N N N 24.664 -44.787 15.370 4.932 1.299 1.755 C43 A1BDP 22 A1BDP C51 C22 C 0 1 Y N N N N N 20.805 -43.478 18.637 0.812 2.185 -0.621 C51 A1BDP 23 A1BDP C61 C23 C 0 1 Y N N N N N 20.299 -41.316 19.653 -1.350 3.128 -0.147 C61 A1BDP 24 A1BDP C62 C24 C 0 1 N N N N N N 22.674 -42.205 19.756 0.696 4.596 -0.055 C62 A1BDP 25 A1BDP C7 C25 C 0 1 Y N N N N N 20.665 -40.145 20.361 -2.145 4.230 0.205 C7 A1BDP 26 A1BDP C8 C26 C 0 1 Y N N N N N 19.746 -39.174 20.655 -3.495 4.087 0.325 C8 A1BDP 27 A1BDP C9 C27 C 0 1 Y N N N N N 18.412 -39.304 20.263 -4.109 2.859 0.104 C9 A1BDP 28 A1BDP N16 N1 N 0 1 Y N N N N N 15.209 -37.782 18.784 -5.005 -2.040 -0.791 N16 A1BDP 29 A1BDP N20 N2 N 0 1 Y N N N N N 14.147 -38.150 20.921 -4.705 -2.462 1.463 N20 A1BDP 30 A1BDP N21 N3 N 0 1 N N N N N N 20.053 -50.006 17.382 3.342 -3.994 0.690 N21 A1BDP 31 A1BDP N4 N4 N 0 1 N N N N N N 23.275 -45.268 15.190 3.472 1.457 1.794 N4 A1BDP 32 A1BDP O10 O2 O 0 1 N N N N N N 16.707 -40.494 19.220 -3.976 0.547 -0.454 O10 A1BDP 33 A1BDP O11 O3 O 0 1 N N N N N N 17.257 -42.671 18.202 -1.739 -0.460 -0.913 O11 A1BDP 34 A1BDP O12 O4 O 0 1 N N N N N N 17.800 -45.084 17.417 0.604 -1.369 -1.155 O12 A1BDP 35 A1BDP O14 O5 O 0 1 N N N N N N 15.092 -40.922 20.630 -3.708 0.079 1.698 O14 A1BDP 36 A1BDP O1C O6 O 0 1 N N N N N N 19.554 -45.792 15.494 2.559 0.506 -2.924 O1C A1BDP 37 A1BDP O21 O7 O 0 1 N N N N N N 21.120 -50.015 15.376 5.301 -3.268 -0.067 O21 A1BDP 38 A1BDP O3 O8 O 0 1 N N N N N N 23.200 -48.151 15.857 3.680 -1.255 2.250 O3 A1BDP 39 A1BDP H4 H1 H 0 1 N N N N N N 23.279 -46.010 17.140 1.748 0.528 1.046 H4 A1BDP 40 A1BDP H5C1 H2 H 0 0 N N N N N N 22.742 -44.250 18.315 2.639 3.099 -0.019 H5C1 A1BDP 41 A1BDP H5C2 H3 H 0 0 N N N N N N 21.540 -45.433 18.933 2.510 2.777 -1.761 H5C2 A1BDP 42 A1BDP H191 H4 H 0 0 N N N N N N 14.862 -35.903 17.888 -5.814 -3.556 -1.976 H191 A1BDP 43 A1BDP H181 H5 H 0 0 N N N N N N 13.406 -35.030 19.717 -6.005 -5.115 -0.047 H181 A1BDP 44 A1BDP H171 H6 H 0 0 N N N N N N 12.989 -36.549 21.652 -5.259 -4.337 2.194 H171 A1BDP 45 A1BDP H41 H7 H 0 1 N N N N N N 21.380 -44.145 16.178 4.112 1.219 -0.747 H41 A1BDP 46 A1BDP H431 H8 H 0 0 N N N N N N 23.634 -45.272 13.101 3.257 0.268 3.513 H431 A1BDP 47 A1BDP H432 H9 H 0 0 N N N N N N 23.402 -46.894 13.836 3.362 2.019 3.815 H432 A1BDP 48 A1BDP H433 H10 H 0 0 N N N N N N 21.992 -45.809 13.592 1.869 1.319 3.145 H433 A1BDP 49 A1BDP H422 H11 H 0 0 N N N N N N 25.015 -44.321 14.437 5.304 1.603 0.777 H422 A1BDP 50 A1BDP H423 H12 H 0 0 N N N N N N 24.693 -44.047 16.183 5.385 1.921 2.526 H423 A1BDP 51 A1BDP H421 H13 H 0 0 N N N N N N 25.316 -45.636 15.623 5.189 0.255 1.933 H421 A1BDP 52 A1BDP H622 H14 H 0 0 N N N N N N 22.806 -42.639 20.758 0.972 4.691 0.995 H622 A1BDP 53 A1BDP H623 H15 H 0 0 N N N N N N 23.329 -42.725 19.042 1.590 4.677 -0.674 H623 A1BDP 54 A1BDP H621 H16 H 0 0 N N N N N N 22.935 -41.137 19.782 -0.002 5.390 -0.320 H621 A1BDP 55 A1BDP H7 H17 H 0 1 N N N N N N 21.690 -40.016 20.675 -1.686 5.191 0.382 H7 A1BDP 56 A1BDP H8 H18 H 0 1 N N N N N N 20.057 -38.294 21.198 -4.097 4.942 0.595 H8 A1BDP 57 A1BDP H9 H19 H 0 1 N N N N N N 17.696 -38.530 20.499 -5.181 2.773 0.203 H9 A1BDP 58 A1BDP H211 H20 H 0 0 N N N N N N 19.842 -50.981 17.315 2.397 -3.822 0.828 H211 A1BDP 59 A1BDP H212 H21 H 0 0 N N N N N N 19.758 -49.484 18.182 3.715 -4.861 0.913 H212 A1BDP 60 A1BDP H11 H23 H 0 1 N N N N N N 17.065 -43.524 17.831 -1.805 -1.003 -0.116 H11 A1BDP 61 A1BDP H1C H24 H 0 1 N N N N N N 18.625 -45.594 15.465 2.223 -0.119 -3.581 H1C A1BDP 62 A1BDP H3 H25 H 0 1 N N N N N N 22.920 -49.035 15.651 4.111 -2.118 2.326 H3 A1BDP 63 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal A1BDP C62 C6 SING N N 1 A1BDP C6 C61 DOUB Y N 2 A1BDP C61 C7 SING Y N 3 A1BDP C7 C8 DOUB Y N 4 A1BDP C8 C9 SING Y N 5 A1BDP C9 C10 DOUB Y N 6 A1BDP C10 C1A SING Y N 7 A1BDP C61 C1A SING Y N 8 A1BDP C1A C11 DOUB Y N 9 A1BDP C11 C1B SING Y N 10 A1BDP C1B C51 DOUB Y N 11 A1BDP C6 C51 SING Y N 12 A1BDP C51 C5 SING N N 13 A1BDP C5 C41 SING N N 14 A1BDP C41 C4 SING N N 15 A1BDP C4 C3 SING N N 16 A1BDP C3 C2 DOUB N N 17 A1BDP C2 C1 SING N N 18 A1BDP C1 O1 DOUB N N 19 A1BDP C1 C1C SING N N 20 A1BDP C41 C1C SING N N 21 A1BDP C1C C12 SING N N 22 A1BDP C1B C12 SING N N 23 A1BDP C12 O12 DOUB N N 24 A1BDP C1C O1C SING N N 25 A1BDP C2 C21 SING N N 26 A1BDP C21 O21 DOUB N N 27 A1BDP C21 N21 SING N N 28 A1BDP C3 O3 SING N N 29 A1BDP C4 N4 SING N N 30 A1BDP N4 C43 SING N N 31 A1BDP N4 C42 SING N N 32 A1BDP C11 O11 SING N N 33 A1BDP C10 O10 SING N N 34 A1BDP O10 C13 SING N N 35 A1BDP C17 C18 DOUB Y N 36 A1BDP C18 C19 SING Y N 37 A1BDP C13 C15 SING N N 38 A1BDP C15 N20 SING Y N 39 A1BDP C19 N20 DOUB Y N 40 A1BDP C15 N16 DOUB Y N 41 A1BDP C17 N16 SING Y N 42 A1BDP C13 O14 DOUB N N 43 A1BDP C4 H4 SING N N 44 A1BDP C5 H5C1 SING N N 45 A1BDP C5 H5C2 SING N N 46 A1BDP C17 H191 SING N N 47 A1BDP C18 H181 SING N N 48 A1BDP C19 H171 SING N N 49 A1BDP C41 H41 SING N N 50 A1BDP C42 H431 SING N N 51 A1BDP C42 H432 SING N N 52 A1BDP C42 H433 SING N N 53 A1BDP C43 H422 SING N N 54 A1BDP C43 H423 SING N N 55 A1BDP C43 H421 SING N N 56 A1BDP C62 H622 SING N N 57 A1BDP C62 H623 SING N N 58 A1BDP C62 H621 SING N N 59 A1BDP C7 H7 SING N N 60 A1BDP C8 H8 SING N N 61 A1BDP C9 H9 SING N N 62 A1BDP N21 H211 SING N N 63 A1BDP N21 H212 SING N N 64 A1BDP O11 H11 SING N N 65 A1BDP O1C H1C SING N N 66 A1BDP O3 H3 SING N N 67 # loop_ _pdbx_chem_comp_descriptor.comp_id _pdbx_chem_comp_descriptor.type _pdbx_chem_comp_descriptor.program _pdbx_chem_comp_descriptor.program_version _pdbx_chem_comp_descriptor.descriptor A1BDP SMILES ACDLabs 14.52 "NC(=O)C=1C(=O)C2(O)C(=O)c3c(O)c4c(OC(=O)c5ncccn5)cccc4c(C)c3CC2C(N(C)C)C=1O" A1BDP InChI InChI 1.06 "InChI=1S/C27H24N4O8/c1-11-12-6-4-7-15(39-26(37)25-29-8-5-9-30-25)16(12)20(32)17-13(11)10-14-19(31(2)3)21(33)18(24(28)36)23(35)27(14,38)22(17)34/h4-9,14,19,32-33,38H,10H2,1-3H3,(H2,28,36)/t14-,19-,27-/m0/s1" A1BDP InChIKey InChI 1.06 DFIDZPZXUCCNPB-DCOBRAFBSA-N A1BDP SMILES_CANONICAL CACTVS 3.385 "CN(C)[C@H]1[C@@H]2Cc3c(C)c4cccc(OC(=O)c5ncccn5)c4c(O)c3C(=O)[C@]2(O)C(=O)C(=C1O)C(N)=O" A1BDP SMILES CACTVS 3.385 "CN(C)[CH]1[CH]2Cc3c(C)c4cccc(OC(=O)c5ncccn5)c4c(O)c3C(=O)[C]2(O)C(=O)C(=C1O)C(N)=O" A1BDP SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "Cc1c2cccc(c2c(c3c1C[C@H]4[C@@H](C(=C(C(=O)[C@]4(C3=O)O)C(=O)N)O)N(C)C)O)OC(=O)c5ncccn5" A1BDP SMILES "OpenEye OEToolkits" 3.1.0.0 "Cc1c2cccc(c2c(c3c1CC4C(C(=C(C(=O)C4(C3=O)O)C(=O)N)O)N(C)C)O)OC(=O)c5ncccn5" # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version _pdbx_chem_comp_identifier.identifier A1BDP "SYSTEMATIC NAME" ACDLabs 14.52 "(6aS,7S,10aS)-9-carbamoyl-7-(dimethylamino)-8,10a,12-trihydroxy-5-methyl-10,11-dioxo-6,6a,7,10,10a,11-hexahydrotetracen-1-yl pyrimidine-2-carboxylate" A1BDP "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "[(6~{a}~{S},7~{S},10~{a}~{S})-9-aminocarbonyl-7-(dimethylamino)-5-methyl-8,10~{a},12-tris(oxidanyl)-10,11-bis(oxidanylidene)-6~{a},7-dihydro-6~{H}-tetracen-1-yl] pyrimidine-2-carboxylate" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1BDP "Create component" 2024-10-15 RCSB A1BDP "Initial release" 2025-03-05 RCSB #