data_A1D46 # _chem_comp.id A1D46 _chem_comp.name "3-(1~{H}-benzimidazol-5-ylmethylidene)-4-piperidin-4-yloxy-1~{H}-indol-2-one" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C21 H20 N4 O2" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms "(Z)-3-((1H-benzo[d]imidazol-5-yl)methylene)-4-(piperidin-4-yloxy)indolin-2-one" _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-12-21 _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 360.409 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1D46 _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 8XFV _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 A1D46 O01 O1 O 0 1 N N N N N N -16.095 -9.724 22.541 -2.532 -2.056 -0.482 O01 A1D46 1 A1D46 C02 C1 C 0 1 N N N N N N -16.406 -10.093 23.612 -1.326 -2.103 -0.327 C02 A1D46 2 A1D46 C03 C2 C 0 1 N N N N N N -15.945 -11.342 24.308 -0.416 -0.947 -0.242 C03 A1D46 3 A1D46 C04 C3 C 0 1 Y N N N N N -16.617 -11.407 25.669 0.930 -1.532 -0.053 C04 A1D46 4 A1D46 C05 C4 C 0 1 Y N N N N N -16.573 -12.388 26.774 2.202 -0.977 0.094 C05 A1D46 5 A1D46 O06 O2 O 0 1 N N N N N N -15.769 -13.613 26.728 2.364 0.372 0.079 O06 A1D46 6 A1D46 C07 C5 C 0 1 N N N N N N -16.463 -14.830 27.063 3.674 0.871 0.355 C07 A1D46 7 A1D46 C08 C6 C 0 1 N N N N N N -16.173 -15.312 28.467 3.574 2.301 0.892 C08 A1D46 8 A1D46 C09 C7 C 0 1 N N N N N N -16.994 -16.595 28.844 4.983 2.852 1.128 C09 A1D46 9 A1D46 N10 N1 N 0 1 N N N N N N -16.966 -17.699 27.855 5.734 2.835 -0.133 N10 A1D46 10 A1D46 C11 C8 C 0 1 N N N N N N -16.957 -17.220 26.398 5.884 1.466 -0.644 C11 A1D46 11 A1D46 C12 C9 C 0 1 N N N N N N -16.109 -15.959 26.131 4.503 0.874 -0.933 C12 A1D46 12 A1D46 C13 C10 C 0 1 Y N N N N N -17.325 -12.105 27.916 3.298 -1.809 0.257 C13 A1D46 13 A1D46 C14 C11 C 0 1 Y N N N N N -18.144 -10.902 28.013 3.128 -3.182 0.273 C14 A1D46 14 A1D46 C15 C12 C 0 1 Y N N N N N -18.199 -9.962 26.949 1.873 -3.739 0.128 C15 A1D46 15 A1D46 C16 C13 C 0 1 Y N N N N N -17.439 -10.214 25.784 0.759 -2.922 -0.037 C16 A1D46 16 A1D46 N17 N2 N 0 1 N N N N N N -17.313 -9.393 24.498 -0.589 -3.220 -0.197 N17 A1D46 17 A1D46 C18 C14 C 0 1 N N N N N N -15.130 -12.289 23.842 -0.744 0.375 -0.321 C18 A1D46 18 A1D46 C19 C15 C 0 1 Y N N N N N -13.600 -12.168 23.492 -2.153 0.783 -0.312 C19 A1D46 19 A1D46 C20 C16 C 0 1 Y N N N N N -13.121 -13.026 22.529 -2.588 1.820 -1.154 C20 A1D46 20 A1D46 C21 C17 C 0 1 Y N N N N N -11.792 -13.035 22.140 -3.895 2.207 -1.153 C21 A1D46 21 A1D46 C22 C18 C 0 1 Y N N N N N -10.880 -12.141 22.747 -4.811 1.578 -0.316 C22 A1D46 22 A1D46 N23 N3 N 0 1 Y N N N N N -9.567 -11.934 22.575 -6.161 1.735 -0.090 N23 A1D46 23 A1D46 C24 C19 C 0 1 Y N N N N N -9.176 -10.959 23.411 -6.524 0.825 0.855 C24 A1D46 24 A1D46 N25 N4 N 0 1 Y N N N N N -10.236 -10.555 24.108 -5.492 0.123 1.221 N25 A1D46 25 A1D46 C26 C20 C 0 1 Y N N N N N -11.321 -11.273 23.709 -4.394 0.537 0.534 C26 A1D46 26 A1D46 C27 C21 C 0 1 Y N N N N N -12.688 -11.275 24.099 -3.060 0.137 0.529 C27 A1D46 27 A1D46 H2 H2 H 0 1 N N N N N N -17.546 -14.653 26.984 4.157 0.235 1.097 H2 A1D46 28 A1D46 H3 H3 H 0 1 N N N N N N -15.101 -15.544 28.546 3.056 2.927 0.166 H3 A1D46 29 A1D46 H4 H4 H 0 1 N N N N N N -16.428 -14.510 29.175 3.022 2.299 1.832 H4 A1D46 30 A1D46 H5 H5 H 0 1 N N N N N N -18.043 -16.294 28.983 4.915 3.875 1.497 H5 A1D46 31 A1D46 H6 H6 H 0 1 N N N N N N -16.595 -16.983 29.793 5.496 2.233 1.865 H6 A1D46 32 A1D46 H7 H7 H 0 1 N N N N N N -17.775 -18.269 27.995 6.633 3.281 -0.024 H7 A1D46 33 A1D46 H9 H9 H 0 1 N N N N N N -17.994 -17.002 26.104 6.471 1.484 -1.562 H9 A1D46 34 A1D46 H10 H10 H 0 1 N N N N N N -16.562 -18.035 25.773 6.392 0.854 0.101 H10 A1D46 35 A1D46 H11 H11 H 0 1 N N N N N N -15.047 -16.211 26.266 4.613 -0.147 -1.298 H11 A1D46 36 A1D46 H12 H12 H 0 1 N N N N N N -16.279 -15.630 25.095 3.999 1.478 -1.688 H12 A1D46 37 A1D46 H13 H13 H 0 1 N N N N N N -17.300 -12.794 28.748 4.285 -1.386 0.372 H13 A1D46 38 A1D46 H14 H14 H 0 1 N N N N N N -18.719 -10.723 28.910 3.987 -3.826 0.401 H14 A1D46 39 A1D46 H15 H15 H 0 1 N N N N N N -18.808 -9.074 27.029 1.756 -4.812 0.142 H15 A1D46 40 A1D46 H16 H16 H 0 1 N N N N N N -17.775 -8.527 24.304 -0.952 -4.119 -0.214 H16 A1D46 41 A1D46 H17 H17 H 0 1 N N N N N N -15.575 -13.260 23.685 0.034 1.120 -0.390 H17 A1D46 42 A1D46 H19 H19 H 0 1 N N N N N N -13.806 -13.717 22.060 -1.882 2.314 -1.806 H19 A1D46 43 A1D46 H20 H20 H 0 1 N N N N N N -11.454 -13.721 21.377 -4.220 3.006 -1.804 H20 A1D46 44 A1D46 H21 H21 H 0 1 N N N N N N -8.978 -12.423 21.932 -6.746 2.376 -0.524 H21 A1D46 45 A1D46 H22 H22 H 0 1 N N N N N N -8.173 -10.569 23.502 -7.524 0.703 1.244 H22 A1D46 46 A1D46 H24 H24 H 0 1 N N N N N N -13.031 -10.592 24.862 -2.729 -0.664 1.174 H24 A1D46 47 # 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 A1D46 C21 C20 DOUB Y N 1 A1D46 C21 C22 SING Y N 2 A1D46 C20 C19 SING Y N 3 A1D46 O01 C02 DOUB N N 4 A1D46 N23 C22 SING Y N 5 A1D46 N23 C24 SING Y N 6 A1D46 C22 C26 DOUB Y N 7 A1D46 C24 N25 DOUB Y N 8 A1D46 C19 C18 SING N N 9 A1D46 C19 C27 DOUB Y N 10 A1D46 C02 C03 SING N N 11 A1D46 C02 N17 SING N N 12 A1D46 C26 C27 SING Y N 13 A1D46 C26 N25 SING Y N 14 A1D46 C18 C03 DOUB N Z 15 A1D46 C03 C04 SING N N 16 A1D46 N17 C16 SING N N 17 A1D46 C04 C16 DOUB Y N 18 A1D46 C04 C05 SING Y N 19 A1D46 C16 C15 SING Y N 20 A1D46 C12 C11 SING N N 21 A1D46 C12 C07 SING N N 22 A1D46 C11 N10 SING N N 23 A1D46 O06 C05 SING N N 24 A1D46 O06 C07 SING N N 25 A1D46 C05 C13 DOUB Y N 26 A1D46 C15 C14 DOUB Y N 27 A1D46 C07 C08 SING N N 28 A1D46 N10 C09 SING N N 29 A1D46 C13 C14 SING Y N 30 A1D46 C08 C09 SING N N 31 A1D46 C07 H2 SING N N 32 A1D46 C08 H3 SING N N 33 A1D46 C08 H4 SING N N 34 A1D46 C09 H5 SING N N 35 A1D46 C09 H6 SING N N 36 A1D46 N10 H7 SING N N 37 A1D46 C11 H9 SING N N 38 A1D46 C11 H10 SING N N 39 A1D46 C12 H11 SING N N 40 A1D46 C12 H12 SING N N 41 A1D46 C13 H13 SING N N 42 A1D46 C14 H14 SING N N 43 A1D46 C15 H15 SING N N 44 A1D46 N17 H16 SING N N 45 A1D46 C18 H17 SING N N 46 A1D46 C20 H19 SING N N 47 A1D46 C21 H20 SING N N 48 A1D46 N23 H21 SING N N 49 A1D46 C24 H22 SING N N 50 A1D46 C27 H24 SING N N 51 # 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 A1D46 InChI InChI 1.06 "InChI=1S/C21H20N4O2/c26-21-15(10-13-4-5-16-18(11-13)24-12-23-16)20-17(25-21)2-1-3-19(20)27-14-6-8-22-9-7-14/h1-5,10-12,14,22H,6-9H2,(H,23,24)(H,25,26)" A1D46 InChIKey InChI 1.06 GEWYCLDNMSKZLN-UHFFFAOYSA-N A1D46 SMILES_CANONICAL CACTVS 3.385 "O=C\1Nc2cccc(OC3CCNCC3)c2C\1=C/c4ccc5[nH]cnc5c4" A1D46 SMILES CACTVS 3.385 "O=C1Nc2cccc(OC3CCNCC3)c2C1=Cc4ccc5[nH]cnc5c4" A1D46 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc2c(c(c1)OC3CCNCC3)C(=Cc4ccc5c(c4)nc[nH]5)C(=O)N2" A1D46 SMILES "OpenEye OEToolkits" 2.0.7 "c1cc2c(c(c1)OC3CCNCC3)C(=Cc4ccc5c(c4)nc[nH]5)C(=O)N2" # _pdbx_chem_comp_identifier.comp_id A1D46 _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 "3-(1~{H}-benzimidazol-5-ylmethylidene)-4-piperidin-4-yloxy-1~{H}-indol-2-one" # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1D46 _pdbx_chem_comp_synonyms.name "(Z)-3-((1H-benzo[d]imidazol-5-yl)methylene)-4-(piperidin-4-yloxy)indolin-2-one" _pdbx_chem_comp_synonyms.provenance AUTHOR _pdbx_chem_comp_synonyms.type ? # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1D46 "Create component" 2023-12-21 PDBC A1D46 "Initial release" 2024-06-12 RCSB #