data_A1D49 # _chem_comp.id A1D49 _chem_comp.name "(5~{S})-1-(3~{H}-benzimidazol-5-yl)-5-(4-propoxyphenyl)imidazolidin-2-one" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H20 N4 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms PQ912 _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-12-22 _chem_comp.pdbx_modified_date 2024-06-07 _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 336.388 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1D49 _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 8XGB _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBC # 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 A1D49 C01 C1 C 0 1 N N N N N N -15.317 -4.188 41.616 7.486 1.964 -0.316 C01 A1D49 1 A1D49 C02 C2 C 0 1 N N N N N N -14.200 -4.582 40.690 6.389 1.645 0.702 C02 A1D49 2 A1D49 C03 C3 C 0 1 N N N N N N -14.571 -4.113 39.324 5.239 0.918 0.002 C03 A1D49 3 A1D49 O04 O1 O 0 1 N N N N N N -13.410 -3.988 38.574 4.215 0.621 0.953 O04 A1D49 4 A1D49 C05 C4 C 0 1 Y N N N N N -13.375 -4.638 37.366 3.114 -0.029 0.491 C05 A1D49 5 A1D49 C06 C5 C 0 1 Y N N N N N -12.446 -5.589 37.174 2.081 -0.349 1.360 C06 A1D49 6 A1D49 C07 C6 C 0 1 Y N N N N N -12.376 -6.285 36.019 0.963 -1.010 0.888 C07 A1D49 7 A1D49 C08 C7 C 0 1 Y N N N N N -13.243 -6.016 35.016 0.874 -1.352 -0.449 C08 A1D49 8 A1D49 C09 C8 C 0 1 Y N N N N N -14.219 -5.062 35.217 1.903 -1.035 -1.316 C09 A1D49 9 A1D49 C10 C9 C 0 1 Y N N N N N -14.275 -4.364 36.397 3.020 -0.369 -0.851 C10 A1D49 10 A1D49 C11 C10 C 0 1 N N S N N N -13.170 -6.849 33.726 -0.344 -2.079 -0.959 C11 A1D49 11 A1D49 C12 C11 C 0 1 N N N N N N -13.965 -6.224 32.628 -0.296 -3.565 -0.555 C12 A1D49 12 A1D49 N13 N1 N 0 1 N N N N N N -13.176 -6.266 31.453 -1.490 -3.740 0.286 N13 A1D49 13 A1D49 C14 C12 C 0 1 N N N N N N -11.902 -6.836 31.849 -2.140 -2.572 0.375 C14 A1D49 14 A1D49 O15 O2 O 0 1 N N N N N N -11.032 -6.986 31.111 -3.166 -2.432 1.012 O15 A1D49 15 A1D49 N16 N2 N 0 1 N N N N N N -11.844 -7.162 33.258 -1.559 -1.571 -0.306 N16 A1D49 16 A1D49 C17 C13 C 0 1 Y N N N N N -10.753 -7.865 33.931 -2.034 -0.256 -0.377 C17 A1D49 17 A1D49 C18 C14 C 0 1 Y N N N N N -9.484 -7.412 34.204 -1.408 0.663 -1.217 C18 A1D49 18 A1D49 C19 C15 C 0 1 Y N N N N N -8.565 -8.241 34.840 -1.858 1.950 -1.298 C19 A1D49 19 A1D49 C20 C16 C 0 1 Y N N N N N -8.893 -9.571 35.236 -2.957 2.354 -0.536 C20 A1D49 20 A1D49 N21 N3 N 0 1 Y N N N N N -8.215 -10.590 35.872 -3.621 3.533 -0.403 N21 A1D49 21 A1D49 C22 C17 C 0 1 Y N N N N N -9.011 -11.618 35.973 -4.594 3.393 0.448 C22 A1D49 22 A1D49 N23 N4 N 0 1 Y N N N N N -10.164 -11.315 35.443 -4.624 2.117 0.920 N23 A1D49 23 A1D49 C24 C18 C 0 1 Y N N N N N -10.125 -10.036 34.978 -3.592 1.430 0.312 C24 A1D49 24 A1D49 C25 C19 C 0 1 Y N N N N N -11.041 -9.166 34.316 -3.128 0.124 0.382 C25 A1D49 25 A1D49 H011 H1 H 0 0 N N N N N N -15.080 -4.518 42.638 7.856 1.036 -0.754 H011 A1D49 26 A1D49 H012 H2 H 0 0 N N N N N N -15.436 -3.095 41.602 7.079 2.599 -1.103 H012 A1D49 27 A1D49 H013 H3 H 0 0 N N N N N N -16.252 -4.663 41.285 8.305 2.482 0.182 H013 A1D49 28 A1D49 H022 H4 H 0 0 N N N N N N -14.077 -5.675 40.692 6.796 1.010 1.488 H022 A1D49 29 A1D49 H021 H5 H 0 0 N N N N N N -13.261 -4.107 41.009 6.020 2.573 1.139 H021 A1D49 30 A1D49 H032 H6 H 0 0 N N N N N N -15.077 -3.139 39.390 4.832 1.554 -0.784 H032 A1D49 31 A1D49 H031 H7 H 0 0 N N N N N N -15.243 -4.844 38.850 5.609 -0.009 -0.436 H031 A1D49 32 A1D49 H061 H8 H 0 0 N N N N N N -11.739 -5.802 37.962 2.150 -0.082 2.404 H061 A1D49 33 A1D49 H071 H9 H 0 0 N N N N N N -11.629 -7.055 35.896 0.159 -1.260 1.564 H071 A1D49 34 A1D49 H091 H10 H 0 0 N N N N N N -14.943 -4.863 34.441 1.831 -1.304 -2.360 H091 A1D49 35 A1D49 H101 H11 H 0 0 N N N N N N -15.029 -3.606 36.549 3.823 -0.121 -1.529 H101 A1D49 36 A1D49 H111 H12 H 0 0 N N N N N N -13.662 -7.805 33.958 -0.421 -1.979 -2.042 H111 A1D49 37 A1D49 H121 H13 H 0 0 N N N N N N -14.203 -5.181 32.884 -0.353 -4.203 -1.437 H121 A1D49 38 A1D49 H122 H14 H 0 0 N N N N N N -14.898 -6.785 32.474 0.609 -3.778 0.013 H122 A1D49 39 A1D49 H131 H15 H 0 0 N N N N N N -13.442 -5.964 30.538 -1.762 -4.569 0.710 H131 A1D49 40 A1D49 H181 H16 H 0 0 N N N N N N -9.199 -6.409 33.924 -0.558 0.355 -1.808 H181 A1D49 41 A1D49 H191 H17 H 0 0 N N N N N N -7.572 -7.865 35.040 -1.365 2.654 -1.951 H191 A1D49 42 A1D49 H221 H19 H 0 0 N N N N N N -8.757 -12.567 36.423 -5.279 4.176 0.738 H221 A1D49 43 A1D49 H231 H20 H 0 0 N N N N N N -10.953 -11.927 35.387 -5.252 1.757 1.565 H231 A1D49 44 A1D49 H251 H21 H 0 0 N N N N N N -12.028 -9.547 34.099 -3.615 -0.591 1.029 H251 A1D49 45 # 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 A1D49 O15 C14 DOUB N N 1 A1D49 N13 C14 SING N N 2 A1D49 N13 C12 SING N N 3 A1D49 C14 N16 SING N N 4 A1D49 C12 C11 SING N N 5 A1D49 N16 C11 SING N N 6 A1D49 N16 C17 SING N N 7 A1D49 C11 C08 SING N N 8 A1D49 C17 C18 DOUB Y N 9 A1D49 C17 C25 SING Y N 10 A1D49 C18 C19 SING Y N 11 A1D49 C25 C24 DOUB Y N 12 A1D49 C19 C20 DOUB Y N 13 A1D49 C24 C20 SING Y N 14 A1D49 C24 N23 SING Y N 15 A1D49 C08 C09 DOUB Y N 16 A1D49 C08 C07 SING Y N 17 A1D49 C09 C10 SING Y N 18 A1D49 C20 N21 SING Y N 19 A1D49 N23 C22 SING Y N 20 A1D49 N21 C22 DOUB Y N 21 A1D49 C07 C06 DOUB Y N 22 A1D49 C10 C05 DOUB Y N 23 A1D49 C06 C05 SING Y N 24 A1D49 C05 O04 SING N N 25 A1D49 O04 C03 SING N N 26 A1D49 C03 C02 SING N N 27 A1D49 C02 C01 SING N N 28 A1D49 C01 H011 SING N N 29 A1D49 C01 H012 SING N N 30 A1D49 C01 H013 SING N N 31 A1D49 C02 H022 SING N N 32 A1D49 C02 H021 SING N N 33 A1D49 C03 H032 SING N N 34 A1D49 C03 H031 SING N N 35 A1D49 C06 H061 SING N N 36 A1D49 C07 H071 SING N N 37 A1D49 C09 H091 SING N N 38 A1D49 C10 H101 SING N N 39 A1D49 C11 H111 SING N N 40 A1D49 C12 H121 SING N N 41 A1D49 C12 H122 SING N N 42 A1D49 N13 H131 SING N N 43 A1D49 C18 H181 SING N N 44 A1D49 C19 H191 SING N N 45 A1D49 C22 H221 SING N N 46 A1D49 N23 H231 SING N N 47 A1D49 C25 H251 SING N N 48 # 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 A1D49 InChI InChI 1.06 "InChI=1S/C19H20N4O2/c1-2-9-25-15-6-3-13(4-7-15)18-11-20-19(24)23(18)14-5-8-16-17(10-14)22-12-21-16/h3-8,10,12,18H,2,9,11H2,1H3,(H,20,24)(H,21,22)/t18-/m1/s1" A1D49 InChIKey InChI 1.06 XHIKZWOEFZENIX-GOSISDBHSA-N A1D49 SMILES_CANONICAL CACTVS 3.385 "CCCOc1ccc(cc1)[C@H]2CNC(=O)N2c3ccc4nc[nH]c4c3" A1D49 SMILES CACTVS 3.385 "CCCOc1ccc(cc1)[CH]2CNC(=O)N2c3ccc4nc[nH]c4c3" A1D49 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCCOc1ccc(cc1)[C@H]2CNC(=O)N2c3ccc4c(c3)[nH]cn4" A1D49 SMILES "OpenEye OEToolkits" 2.0.7 "CCCOc1ccc(cc1)C2CNC(=O)N2c3ccc4c(c3)[nH]cn4" # _pdbx_chem_comp_identifier.comp_id A1D49 _pdbx_chem_comp_identifier.type "SYSTEMATIC NAME" _pdbx_chem_comp_identifier.program "OpenEye OEToolkits" _pdbx_chem_comp_identifier.program_version 2.0.7 _pdbx_chem_comp_identifier.identifier "(5~{S})-1-(3~{H}-benzimidazol-5-yl)-5-(4-propoxyphenyl)imidazolidin-2-one" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1D49 "Create component" 2023-12-22 PDBC A1D49 "Initial release" 2024-06-12 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1D49 _pdbx_chem_comp_synonyms.name PQ912 _pdbx_chem_comp_synonyms.provenance PUBCHEM _pdbx_chem_comp_synonyms.type ? #