data_A1DBR # _chem_comp.id A1DBR _chem_comp.name "2-[(3S)-2,6-dioxopiperidin-3-yl]-1-oxo-N-[(4-{[2-(9H-pyrido[2,3-b]indol-9-yl)acetamido]methyl}phenyl)methyl]-2,3-dihydro-1H-isoindole-5-carboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C35 H30 N6 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2026-03-27 _chem_comp.pdbx_modified_date 2026-08-21 _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 614.650 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1DBR _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 12BP _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 A1DBR C5 C1 C 0 1 Y N N N N N 123.738 123.456 180.853 -9.537 1.150 -0.174 C5 A1DBR 1 A1DBR C6 C2 C 0 1 Y N N N N N 123.724 122.089 181.099 -9.251 2.506 -0.297 C6 A1DBR 2 A1DBR C7 C3 C 0 1 Y N N N N N 122.525 121.493 181.459 -10.134 3.342 -0.946 C7 A1DBR 3 A1DBR C8 C4 C 0 1 Y N N N N N 121.366 122.246 181.571 -11.312 2.844 -1.480 C8 A1DBR 4 A1DBR C10 C5 C 0 1 Y N N N N N 122.571 124.231 180.963 -10.730 0.648 -0.715 C10 A1DBR 5 A1DBR C15 C6 C 0 1 Y N N N N N 123.020 127.932 180.125 -11.320 -3.102 -0.264 C15 A1DBR 6 A1DBR C20 C7 C 0 1 Y N N N N N 128.696 125.742 185.126 -2.151 -1.100 0.766 C20 A1DBR 7 A1DBR C21 C8 C 0 1 Y N N N N N 129.703 126.676 185.286 -0.930 -0.984 1.403 C21 A1DBR 8 A1DBR C22 C9 C 0 1 Y N N N N N 130.652 126.879 184.295 -0.314 0.249 1.496 C22 A1DBR 9 A1DBR C26 C10 C 0 1 Y N N N N N 133.839 128.746 181.421 4.472 0.059 0.636 C26 A1DBR 10 A1DBR C28 C11 C 0 1 Y N N N N N 135.387 128.724 179.574 6.814 -0.050 0.131 C28 A1DBR 11 A1DBR C11 C12 C 0 1 Y N N N N N 122.940 125.595 180.632 -10.742 -0.796 -0.425 C11 A1DBR 12 A1DBR C12 C13 C 0 1 Y N N N N N 124.318 125.574 180.336 -9.556 -1.076 0.273 C12 A1DBR 13 A1DBR C14 C14 C 0 1 Y N N N N N 124.371 127.792 179.860 -10.132 -3.309 0.416 C14 A1DBR 14 A1DBR C16 C15 C 0 1 Y N N N N N 122.291 126.821 180.515 -11.639 -1.827 -0.698 C16 A1DBR 15 A1DBR C18 C16 C 0 1 N N N N N N 127.473 124.006 183.769 -4.084 -0.110 -0.479 C18 A1DBR 16 A1DBR C19 C17 C 0 1 Y N N N N N 128.606 124.981 183.972 -2.753 0.016 0.216 C19 A1DBR 17 A1DBR C2 C18 C 0 1 N N N N N N 126.921 123.427 181.468 -6.449 0.021 0.094 C2 A1DBR 18 A1DBR C23 C19 C 0 1 N N N N N N 131.729 127.923 184.448 1.017 0.376 2.192 C23 A1DBR 19 A1DBR C25 C20 C 0 1 N N N N N N 133.486 128.277 182.796 3.382 0.254 1.618 C25 A1DBR 20 A1DBR C27 C21 C 0 1 Y N N N N N 135.066 128.377 180.878 5.806 0.131 1.047 C27 A1DBR 21 A1DBR C29 C22 C 0 1 N N N N N N 136.604 128.400 178.759 8.319 -0.037 0.240 C29 A1DBR 22 A1DBR C3 C23 C 0 1 N N N N N N 126.153 123.828 180.219 -7.558 0.225 1.093 C3 A1DBR 23 A1DBR C31 C24 C 0 1 N N S N N N 137.128 128.921 176.292 10.245 -0.379 -1.485 C31 A1DBR 24 A1DBR C32 C25 C 0 1 N N N N N N 136.896 127.596 175.596 11.006 -1.128 -0.424 C32 A1DBR 25 A1DBR C34 C26 C 0 1 N N N N N N 139.158 127.617 174.691 11.509 0.843 0.757 C34 A1DBR 26 A1DBR C35 C27 C 0 1 N N N N N N 139.423 128.956 175.305 10.778 1.706 -0.236 C35 A1DBR 27 A1DBR C36 C28 C 0 1 N N N N N N 138.608 129.162 176.576 10.821 1.035 -1.613 C36 A1DBR 28 A1DBR C39 C29 C 0 1 N N N N N N 135.067 129.629 177.454 7.790 -0.453 -1.946 C39 A1DBR 29 A1DBR C41 C30 C 0 1 Y N N N N N 134.493 129.444 178.805 6.517 -0.306 -1.210 C41 A1DBR 30 A1DBR C42 C31 C 0 1 Y N N N N N 133.261 129.825 179.337 5.184 -0.384 -1.618 C42 A1DBR 31 A1DBR C43 C32 C 0 1 Y N N N N N 132.943 129.475 180.640 4.170 -0.202 -0.702 C43 A1DBR 32 A1DBR C45 C33 C 0 1 Y N N N N N 130.562 126.116 183.140 -0.918 1.367 0.952 C45 A1DBR 33 A1DBR C46 C34 C 0 1 Y N N N N N 129.554 125.182 182.981 -2.134 1.249 0.304 C46 A1DBR 34 A1DBR C9 C35 C 0 1 Y N N N N N 121.381 123.610 181.326 -11.614 1.504 -1.368 C9 A1DBR 35 A1DBR N13 N1 N 0 1 Y N N N N N 125.041 126.632 179.958 -9.302 -2.318 0.668 N13 A1DBR 36 A1DBR N17 N2 N 0 1 N N N N N N 126.773 124.234 182.514 -5.163 0.089 0.492 N17 A1DBR 37 A1DBR N24 N3 N 0 1 N N N N N N 132.209 128.400 183.160 2.096 0.184 1.220 N24 A1DBR 38 A1DBR N30 N4 N 0 1 N N N N N N 136.279 129.010 177.467 8.831 -0.299 -1.110 N30 A1DBR 39 A1DBR N33 N5 N 0 1 N N N N N N 137.876 127.153 174.759 11.573 -0.488 0.610 N33 A1DBR 40 A1DBR N4 N6 N 0 1 Y N N N N N 124.791 124.270 180.473 -8.852 0.102 0.418 N4 A1DBR 41 A1DBR O1 O1 O 0 1 N N N N N N 127.621 122.421 181.487 -6.713 -0.206 -1.067 O1 A1DBR 42 A1DBR O37 O2 O 0 1 N N N N N N 140.034 126.943 174.158 12.052 1.362 1.709 O37 A1DBR 43 A1DBR O38 O3 O 0 1 N N N N N N 135.870 126.952 175.785 11.108 -2.334 -0.505 O38 A1DBR 44 A1DBR O40 O4 O 0 1 N N N N N N 134.590 130.211 176.499 7.882 -0.680 -3.136 O40 A1DBR 45 A1DBR O44 O5 O 0 1 N N N N N N 134.340 127.810 183.543 3.646 0.476 2.783 O44 A1DBR 46 A1DBR H1 H1 H 0 1 N N N N N N 124.627 121.503 181.012 -8.336 2.904 0.116 H1 A1DBR 47 A1DBR H2 H2 H 0 1 N N N N N N 122.493 120.431 181.654 -9.906 4.393 -1.038 H2 A1DBR 48 A1DBR H3 H3 H 0 1 N N N N N N 120.441 121.764 181.852 -11.997 3.509 -1.986 H3 A1DBR 49 A1DBR H4 H4 H 0 1 N N N N N N 122.540 128.895 180.029 -11.989 -3.928 -0.456 H4 A1DBR 50 A1DBR H5 H5 H 0 1 N N N N N N 127.969 125.604 185.912 -2.633 -2.064 0.693 H5 A1DBR 51 A1DBR H6 H6 H 0 1 N N N N N N 129.751 127.256 186.196 -0.458 -1.857 1.829 H6 A1DBR 52 A1DBR H7 H7 H 0 1 N N N N N N 124.921 128.670 179.555 -9.884 -4.303 0.757 H7 A1DBR 53 A1DBR H8 H8 H 0 1 N N N N N N 121.235 126.904 180.725 -12.557 -1.637 -1.234 H8 A1DBR 54 A1DBR H9 H9 H 0 1 N N N N N N 126.759 124.115 184.598 -4.158 0.643 -1.263 H9 A1DBR 55 A1DBR H10 H10 H 0 1 N N N N N N 127.880 122.984 183.767 -4.171 -1.103 -0.920 H10 A1DBR 56 A1DBR H11 H11 H 0 1 N N N N N N 132.573 127.485 185.002 1.102 1.367 2.637 H11 A1DBR 57 A1DBR H12 H12 H 0 1 N N N N N N 131.321 128.774 185.013 1.093 -0.381 2.973 H12 A1DBR 58 A1DBR H13 H13 H 0 1 N N N N N N 135.772 127.818 181.475 6.043 0.329 2.081 H13 A1DBR 59 A1DBR H14 H14 H 0 1 N N N N N N 136.743 127.313 178.664 8.661 0.938 0.587 H14 A1DBR 60 A1DBR H15 H15 H 0 1 N N N N N N 137.508 128.848 179.196 8.651 -0.817 0.925 H15 A1DBR 61 A1DBR H16 H16 H 0 1 N N N N N N 126.114 122.960 179.544 -7.485 -0.528 1.878 H16 A1DBR 62 A1DBR H17 H17 H 0 1 N N N N N N 126.696 124.649 179.729 -7.472 1.218 1.534 H17 A1DBR 63 A1DBR H18 H18 H 0 1 N N N N N N 136.809 129.708 175.592 10.340 -0.899 -2.438 H18 A1DBR 64 A1DBR H19 H19 H 0 1 N N N N N N 140.493 129.030 175.551 9.741 1.825 0.078 H19 A1DBR 65 A1DBR H20 H20 H 0 1 N N N N N N 139.158 129.740 174.580 11.257 2.684 -0.292 H20 A1DBR 66 A1DBR H21 H21 H 0 1 N N N N N N 138.951 128.456 177.347 11.853 0.980 -1.961 H21 A1DBR 67 A1DBR H22 H22 H 0 1 N N N N N N 138.747 130.193 176.935 10.224 1.611 -2.320 H22 A1DBR 68 A1DBR H23 H23 H 0 1 N N N N N N 132.560 130.388 178.738 4.947 -0.586 -2.652 H23 A1DBR 69 A1DBR H24 H24 H 0 1 N N N N N N 131.991 129.770 181.055 3.140 -0.261 -1.019 H24 A1DBR 70 A1DBR H25 H25 H 0 1 N N N N N N 131.289 126.253 182.354 -0.436 2.331 1.025 H25 A1DBR 71 A1DBR H26 H26 H 0 1 N N N N N N 129.505 124.601 182.072 -2.606 2.122 -0.121 H26 A1DBR 72 A1DBR H27 H27 H 0 1 N N N N N N 120.473 124.188 181.417 -12.532 1.118 -1.786 H27 A1DBR 73 A1DBR H28 H28 H 0 1 N N N N N N 126.162 125.022 182.436 -4.952 0.270 1.421 H28 A1DBR 74 A1DBR H29 H29 H 0 1 N N N N N N 131.563 128.832 182.530 1.885 0.007 0.290 H29 A1DBR 75 A1DBR H30 H30 H 0 1 N N N N N N 137.631 126.414 174.132 12.047 -1.009 1.277 H30 A1DBR 76 # 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 A1DBR O37 C34 DOUB N N 1 A1DBR C34 N33 SING N N 2 A1DBR C34 C35 SING N N 3 A1DBR N33 C32 SING N N 4 A1DBR C35 C36 SING N N 5 A1DBR C32 O38 DOUB N N 6 A1DBR C32 C31 SING N N 7 A1DBR C31 C36 SING N N 8 A1DBR C31 N30 SING N N 9 A1DBR O40 C39 DOUB N N 10 A1DBR C39 N30 SING N N 11 A1DBR C39 C41 SING N N 12 A1DBR N30 C29 SING N N 13 A1DBR C29 C28 SING N N 14 A1DBR C41 C42 DOUB Y N 15 A1DBR C41 C28 SING Y N 16 A1DBR C42 C43 SING Y N 17 A1DBR C28 C27 DOUB Y N 18 A1DBR C14 N13 DOUB Y N 19 A1DBR C14 C15 SING Y N 20 A1DBR N13 C12 SING Y N 21 A1DBR C15 C16 DOUB Y N 22 A1DBR C3 N4 SING N N 23 A1DBR C3 C2 SING N N 24 A1DBR C12 N4 SING Y N 25 A1DBR C12 C11 DOUB Y N 26 A1DBR N4 C5 SING Y N 27 A1DBR C16 C11 SING Y N 28 A1DBR C11 C10 SING Y N 29 A1DBR C43 C26 DOUB Y N 30 A1DBR C5 C10 DOUB Y N 31 A1DBR C5 C6 SING Y N 32 A1DBR C27 C26 SING Y N 33 A1DBR C10 C9 SING Y N 34 A1DBR C6 C7 DOUB Y N 35 A1DBR C9 C8 DOUB Y N 36 A1DBR C26 C25 SING N N 37 A1DBR C7 C8 SING Y N 38 A1DBR C2 O1 DOUB N N 39 A1DBR C2 N17 SING N N 40 A1DBR N17 C18 SING N N 41 A1DBR C25 N24 SING N N 42 A1DBR C25 O44 DOUB N N 43 A1DBR C46 C45 DOUB Y N 44 A1DBR C46 C19 SING Y N 45 A1DBR C45 C22 SING Y N 46 A1DBR N24 C23 SING N N 47 A1DBR C18 C19 SING N N 48 A1DBR C19 C20 DOUB Y N 49 A1DBR C22 C23 SING N N 50 A1DBR C22 C21 DOUB Y N 51 A1DBR C20 C21 SING Y N 52 A1DBR C6 H1 SING N N 53 A1DBR C7 H2 SING N N 54 A1DBR C8 H3 SING N N 55 A1DBR C15 H4 SING N N 56 A1DBR C20 H5 SING N N 57 A1DBR C21 H6 SING N N 58 A1DBR C14 H7 SING N N 59 A1DBR C16 H8 SING N N 60 A1DBR C18 H9 SING N N 61 A1DBR C18 H10 SING N N 62 A1DBR C23 H11 SING N N 63 A1DBR C23 H12 SING N N 64 A1DBR C27 H13 SING N N 65 A1DBR C29 H14 SING N N 66 A1DBR C29 H15 SING N N 67 A1DBR C3 H16 SING N N 68 A1DBR C3 H17 SING N N 69 A1DBR C31 H18 SING N N 70 A1DBR C35 H19 SING N N 71 A1DBR C35 H20 SING N N 72 A1DBR C36 H21 SING N N 73 A1DBR C36 H22 SING N N 74 A1DBR C42 H23 SING N N 75 A1DBR C43 H24 SING N N 76 A1DBR C45 H25 SING N N 77 A1DBR C46 H26 SING N N 78 A1DBR C9 H27 SING N N 79 A1DBR N17 H28 SING N N 80 A1DBR N24 H29 SING N N 81 A1DBR N33 H30 SING N N 82 # 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 A1DBR SMILES ACDLabs 14.52 "O=C(Cn1c2ccccc2c2cccnc21)NCc1ccc(cc1)CNC(=O)c1ccc2C(=O)N(Cc2c1)C1CCC(=O)NC1=O" A1DBR InChI InChI 1.06 "InChI=1S/C35H30N6O5/c42-30-14-13-29(34(45)39-30)41-19-24-16-23(11-12-25(24)35(41)46)33(44)38-18-22-9-7-21(8-10-22)17-37-31(43)20-40-28-6-2-1-4-26(28)27-5-3-15-36-32(27)40/h1-12,15-16,29H,13-14,17-20H2,(H,37,43)(H,38,44)(H,39,42,45)/t29-/m0/s1" A1DBR InChIKey InChI 1.06 YGMJASQRQLEOKY-LJAQVGFWSA-N A1DBR SMILES_CANONICAL CACTVS 3.385 "O=C1CC[C@H](N2Cc3cc(ccc3C2=O)C(=O)NCc4ccc(CNC(=O)Cn5c6ccccc6c7cccnc57)cc4)C(=O)N1" A1DBR SMILES CACTVS 3.385 "O=C1CC[CH](N2Cc3cc(ccc3C2=O)C(=O)NCc4ccc(CNC(=O)Cn5c6ccccc6c7cccnc57)cc4)C(=O)N1" A1DBR SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "c1ccc2c(c1)c3cccnc3n2CC(=O)NCc4ccc(cc4)CNC(=O)c5ccc6c(c5)CN(C6=O)[C@H]7CCC(=O)NC7=O" A1DBR SMILES "OpenEye OEToolkits" 3.1.0.0 "c1ccc2c(c1)c3cccnc3n2CC(=O)NCc4ccc(cc4)CNC(=O)c5ccc6c(c5)CN(C6=O)C7CCC(=O)NC7=O" # 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 A1DBR "SYSTEMATIC NAME" ACDLabs 14.52 "2-[(3S)-2,6-dioxopiperidin-3-yl]-1-oxo-N-[(4-{[2-(9H-pyrido[2,3-b]indol-9-yl)acetamido]methyl}phenyl)methyl]-2,3-dihydro-1H-isoindole-5-carboxamide" A1DBR "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "2-[(3~{S})-2,6-bis(oxidanylidene)piperidin-3-yl]-1-oxidanylidene-~{N}-[[4-[(2-pyrido[2,3-b]indol-9-ylethanoylamino)methyl]phenyl]methyl]-3~{H}-isoindole-5-carboxamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1DBR "Create component" 2026-03-27 RCSB A1DBR "Initial release" 2026-08-26 RCSB #