data_A1DE9 # _chem_comp.id A1DE9 _chem_comp.name "N-{4,5-dichloro-2-[4-(5-fluoro-2,6-dioxo-1,2,3,6-tetrahydropyrimidine-4-carbonyl)piperazin-1-yl]phenyl}cyclopentanecarboxamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C21 H22 Cl2 F N5 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2026-04-29 _chem_comp.pdbx_modified_date 2026-09-04 _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 498.335 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1DE9 _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 13BW _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 A1DE9 C2 C1 C 0 1 N N N N N N 14.261 -0.477 18.059 3.595 -0.545 -1.496 C2 A1DE9 1 A1DE9 C4 C2 C 0 1 N N N N N N 14.700 -1.696 17.298 4.634 -0.264 -0.480 C4 A1DE9 2 A1DE9 C5 C3 C 0 1 N N N N N N 14.374 -1.975 16.026 5.318 -1.286 0.103 C5 A1DE9 3 A1DE9 C6 C4 C 0 1 N N N N N N 14.929 -3.115 15.309 6.345 -0.957 1.104 C6 A1DE9 4 A1DE9 C8 C5 C 0 1 N N N N N N 16.065 -3.696 17.447 5.861 1.311 0.803 C8 A1DE9 5 A1DE9 N9 N1 N 0 1 N N N N N N 15.515 -2.561 17.993 4.922 1.037 -0.117 N9 A1DE9 6 A1DE9 C13 C6 C 0 1 N N N N N N 11.239 0.908 19.257 0.798 0.354 0.490 C13 A1DE9 7 A1DE9 C15 C7 C 0 1 N N N N N N 10.885 -1.361 18.475 0.143 0.189 -1.840 C15 A1DE9 8 A1DE9 C16 C8 C 0 1 N N N N N N 12.320 -1.719 18.849 1.244 -0.837 -2.128 C16 A1DE9 9 A1DE9 C17 C9 C 0 1 Y N N N N N 8.975 -0.042 19.300 -1.411 0.858 -0.188 C17 A1DE9 10 A1DE9 C18 C10 C 0 1 Y N N N N N 8.353 0.716 20.343 -2.631 0.275 0.150 C18 A1DE9 11 A1DE9 C19 C11 C 0 1 Y N N N N N 6.980 0.904 20.344 -3.733 1.078 0.404 C19 A1DE9 12 A1DE9 C20 C12 C 0 1 Y N N N N N 6.190 0.325 19.368 -3.619 2.454 0.322 C20 A1DE9 13 A1DE9 C21 C13 C 0 1 Y N N N N N 6.772 -0.394 18.340 -2.407 3.033 -0.014 C21 A1DE9 14 A1DE9 C22 C14 C 0 1 Y N N N N N 8.156 -0.559 18.286 -1.303 2.239 -0.263 C22 A1DE9 15 A1DE9 C12 C15 C 0 1 N N N N N N 12.683 0.581 19.650 1.926 -0.665 0.296 C12 A1DE9 16 A1DE9 C26 C16 C 0 1 N N N N N N 9.726 0.585 22.447 -3.895 -1.725 -0.124 C26 A1DE9 17 A1DE9 C27 C17 C 0 1 N N N N N N 10.220 1.353 23.659 -3.990 -3.229 -0.115 C27 A1DE9 18 A1DE9 C30 C18 C 0 1 N N N N N N 9.197 2.391 24.163 -5.396 -3.684 -0.558 C30 A1DE9 19 A1DE9 C31 C19 C 0 1 N N N N N N 10.042 3.261 25.107 -5.756 -4.904 0.307 C31 A1DE9 20 A1DE9 C32 C20 C 0 1 N N N N N N 11.439 3.346 24.435 -4.557 -5.148 1.246 C32 A1DE9 21 A1DE9 C33 C21 C 0 1 N N N N N N 11.471 2.220 23.362 -3.854 -3.771 1.330 C33 A1DE9 22 A1DE9 F29 F1 F 0 1 N N N N N N 13.585 -1.157 15.326 5.061 -2.570 -0.228 F29 A1DE9 23 A1DE9 N1 N2 N 0 1 N N N N N N 13.162 -0.519 18.816 2.307 -0.677 -1.124 N1 A1DE9 24 A1DE9 N14 N3 N 0 1 N N N N N N 10.357 -0.248 19.306 -0.295 0.052 -0.444 N14 A1DE9 25 A1DE9 N25 N4 N 0 1 N N N N N N 9.125 1.238 21.404 -2.745 -1.120 0.232 N25 A1DE9 26 A1DE9 N7 N5 N 0 1 N N N N N N 15.738 -3.910 16.109 6.569 0.339 1.405 N7 A1DE9 27 A1DE9 O10 O1 O 0 1 N N N N N N 16.783 -4.449 18.077 6.085 2.471 1.093 O10 A1DE9 28 A1DE9 O11 O2 O 0 1 N N N N N N 14.663 -3.404 14.141 6.982 -1.838 1.651 O11 A1DE9 29 A1DE9 O28 O3 O 0 1 N N N N N N 9.841 -0.649 22.380 -4.854 -1.058 -0.453 O28 A1DE9 30 A1DE9 O3 O4 O 0 1 N N N N N N 14.933 0.549 17.874 3.904 -0.651 -2.667 O3 A1DE9 31 A1DE9 CL23 CL1 CL 0 0 N N N N N N 5.773 -1.044 17.058 -2.272 4.761 -0.116 CL23 A1DE9 32 A1DE9 CL24 CL2 CL 0 0 N N N N N N 4.473 0.611 19.392 -5.000 3.457 0.639 CL24 A1DE9 33 A1DE9 H1 H1 H 0 1 N N N N N N 15.718 -2.352 18.949 4.437 1.767 -0.535 H1 A1DE9 34 A1DE9 H2 H2 H 0 1 N N N N N N 11.237 1.306 18.232 0.428 0.297 1.513 H2 A1DE9 35 A1DE9 H3 H3 H 0 1 N N N N N N 10.853 1.672 19.948 1.177 1.357 0.294 H3 A1DE9 36 A1DE9 H4 H4 H 0 1 N N N N N N 10.858 -1.059 17.418 0.531 1.194 -2.002 H4 A1DE9 37 A1DE9 H5 H5 H 0 1 N N N N N N 10.248 -2.246 18.620 -0.702 0.012 -2.505 H5 A1DE9 38 A1DE9 H6 H6 H 0 1 N N N N N N 12.336 -2.147 19.862 0.831 -1.844 -2.067 H6 A1DE9 39 A1DE9 H7 H7 H 0 1 N N N N N N 12.710 -2.457 18.132 1.650 -0.668 -3.125 H7 A1DE9 40 A1DE9 H8 H8 H 0 1 N N N N N N 6.523 1.508 21.114 -4.680 0.629 0.665 H8 A1DE9 41 A1DE9 H9 H9 H 0 1 N N N N N N 8.600 -1.089 17.457 -0.358 2.693 -0.524 H9 A1DE9 42 A1DE9 H10 H10 H 0 1 N N N N N N 12.720 0.285 20.709 2.785 -0.380 0.904 H10 A1DE9 43 A1DE9 H11 H11 H 0 1 N N N N N N 13.318 1.466 19.495 1.580 -1.655 0.594 H11 A1DE9 44 A1DE9 H12 H12 H 0 1 N N N N N N 10.453 0.649 24.472 -3.227 -3.662 -0.761 H12 A1DE9 45 A1DE9 H13 H13 H 0 1 N N N N N N 8.791 2.986 23.331 -6.117 -2.883 -0.393 H13 A1DE9 46 A1DE9 H14 H14 H 0 1 N N N N N N 8.371 1.905 24.703 -5.383 -3.963 -1.612 H14 A1DE9 47 A1DE9 H15 H15 H 0 1 N N N N N N 9.600 4.263 25.208 -6.652 -4.696 0.892 H15 A1DE9 48 A1DE9 H16 H16 H 0 1 N N N N N N 10.118 2.793 26.099 -5.919 -5.776 -0.327 H16 A1DE9 49 A1DE9 H17 H17 H 0 1 N N N N N N 12.232 3.185 25.181 -4.901 -5.462 2.231 H17 A1DE9 50 A1DE9 H18 H18 H 0 1 N N N N N N 11.575 4.329 23.961 -3.886 -5.896 0.821 H18 A1DE9 51 A1DE9 H19 H19 H 0 1 N N N N N N 12.389 1.621 23.456 -2.805 -3.889 1.600 H19 A1DE9 52 A1DE9 H20 H20 H 0 1 N N N N N N 11.415 2.648 22.350 -4.365 -3.119 2.037 H20 A1DE9 53 A1DE9 H21 H21 H 0 1 N N N N N N 9.251 2.230 21.392 -1.995 -1.650 0.546 H21 A1DE9 54 A1DE9 H22 H22 H 0 1 N N N N N N 16.128 -4.724 15.679 7.243 0.571 2.062 H22 A1DE9 55 # 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 A1DE9 O11 C6 DOUB N N 1 A1DE9 C6 C5 SING N N 2 A1DE9 C6 N7 SING N N 3 A1DE9 F29 C5 SING N N 4 A1DE9 C5 C4 DOUB N N 5 A1DE9 N7 C8 SING N N 6 A1DE9 CL23 C21 SING N N 7 A1DE9 C4 N9 SING N N 8 A1DE9 C4 C2 SING N N 9 A1DE9 C8 N9 SING N N 10 A1DE9 C8 O10 DOUB N N 11 A1DE9 O3 C2 DOUB N N 12 A1DE9 C2 N1 SING N N 13 A1DE9 C22 C21 DOUB Y N 14 A1DE9 C22 C17 SING Y N 15 A1DE9 C21 C20 SING Y N 16 A1DE9 C15 C16 SING N N 17 A1DE9 C15 N14 SING N N 18 A1DE9 N1 C16 SING N N 19 A1DE9 N1 C12 SING N N 20 A1DE9 C13 N14 SING N N 21 A1DE9 C13 C12 SING N N 22 A1DE9 C17 N14 SING N N 23 A1DE9 C17 C18 DOUB Y N 24 A1DE9 C20 CL24 SING N N 25 A1DE9 C20 C19 DOUB Y N 26 A1DE9 C18 C19 SING Y N 27 A1DE9 C18 N25 SING N N 28 A1DE9 N25 C26 SING N N 29 A1DE9 O28 C26 DOUB N N 30 A1DE9 C26 C27 SING N N 31 A1DE9 C33 C27 SING N N 32 A1DE9 C33 C32 SING N N 33 A1DE9 C27 C30 SING N N 34 A1DE9 C30 C31 SING N N 35 A1DE9 C32 C31 SING N N 36 A1DE9 N9 H1 SING N N 37 A1DE9 C13 H2 SING N N 38 A1DE9 C13 H3 SING N N 39 A1DE9 C15 H4 SING N N 40 A1DE9 C15 H5 SING N N 41 A1DE9 C16 H6 SING N N 42 A1DE9 C16 H7 SING N N 43 A1DE9 C19 H8 SING N N 44 A1DE9 C22 H9 SING N N 45 A1DE9 C12 H10 SING N N 46 A1DE9 C12 H11 SING N N 47 A1DE9 C27 H12 SING N N 48 A1DE9 C30 H13 SING N N 49 A1DE9 C30 H14 SING N N 50 A1DE9 C31 H15 SING N N 51 A1DE9 C31 H16 SING N N 52 A1DE9 C32 H17 SING N N 53 A1DE9 C32 H18 SING N N 54 A1DE9 C33 H19 SING N N 55 A1DE9 C33 H20 SING N N 56 A1DE9 N25 H21 SING N N 57 A1DE9 N7 H22 SING N N 58 # 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 A1DE9 SMILES ACDLabs 14.52 "O=C(C=1NC(=O)NC(=O)C=1F)N1CCN(CC1)c1cc(Cl)c(Cl)cc1NC(=O)C1CCCC1" A1DE9 InChI InChI 1.06 "InChI=1S/C21H22Cl2FN5O4/c22-12-9-14(25-18(30)11-3-1-2-4-11)15(10-13(12)23)28-5-7-29(8-6-28)20(32)17-16(24)19(31)27-21(33)26-17/h9-11H,1-8H2,(H,25,30)(H2,26,27,31,33)" A1DE9 InChIKey InChI 1.06 HXDWLYBUXRMVMJ-UHFFFAOYSA-N A1DE9 SMILES_CANONICAL CACTVS 3.385 "FC1=C(NC(=O)NC1=O)C(=O)N2CCN(CC2)c3cc(Cl)c(Cl)cc3NC(=O)C4CCCC4" A1DE9 SMILES CACTVS 3.385 "FC1=C(NC(=O)NC1=O)C(=O)N2CCN(CC2)c3cc(Cl)c(Cl)cc3NC(=O)C4CCCC4" A1DE9 SMILES_CANONICAL "OpenEye OEToolkits" 3.1.0.0 "c1c(c(cc(c1Cl)Cl)N2CCN(CC2)C(=O)C3=C(C(=O)NC(=O)N3)F)NC(=O)C4CCCC4" A1DE9 SMILES "OpenEye OEToolkits" 3.1.0.0 "c1c(c(cc(c1Cl)Cl)N2CCN(CC2)C(=O)C3=C(C(=O)NC(=O)N3)F)NC(=O)C4CCCC4" # 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 A1DE9 "SYSTEMATIC NAME" ACDLabs 14.52 "N-{4,5-dichloro-2-[4-(5-fluoro-2,6-dioxo-1,2,3,6-tetrahydropyrimidine-4-carbonyl)piperazin-1-yl]phenyl}cyclopentanecarboxamide" A1DE9 "SYSTEMATIC NAME" "OpenEye OEToolkits" 3.1.0.0 "~{N}-[4,5-bis(chloranyl)-2-[4-[[5-fluoranyl-2,4-bis(oxidanylidene)-1~{H}-pyrimidin-6-yl]carbonyl]piperazin-1-yl]phenyl]cyclopentanecarboxamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1DE9 "Create component" 2026-04-29 RCSB A1DE9 "Initial release" 2026-09-09 RCSB #