data_A1EBI # _chem_comp.id A1EBI _chem_comp.name "(5Z)-3-(3H-benzimidazol-4-ylmethyl)-5-[[3,5-bis(fluoranyl)-4-oxidanyl-phenyl]methylidene]-2-[(E)-hydroxyiminomethyl]imidazol-4-one" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C19 H13 F2 N5 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2024-09-05 _chem_comp.pdbx_modified_date 2025-02-07 _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 397.335 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1EBI _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 8K85 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBC _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 A1EBI C10 C1 C 0 1 N N N N N N 8.450 13.324 -1.772 -0.504 0.547 0.953 C10 A1EBI 1 A1EBI C13 C2 C 0 1 N N N N N N 5.064 12.312 -1.529 0.943 -2.729 0.611 C13 A1EBI 2 A1EBI C17 C3 C 0 1 N N N N N N 7.059 9.935 -1.322 2.945 -0.601 1.557 C17 A1EBI 3 A1EBI C20 C4 C 0 1 Y N N N N N 6.508 9.540 -5.061 4.931 -1.295 -1.586 C20 A1EBI 4 A1EBI C21 C5 C 0 1 Y N N N N N 6.181 8.190 -5.233 5.267 -0.039 -2.006 C21 A1EBI 5 A1EBI C22 C6 C 0 1 Y N N N N N 6.144 7.409 -4.120 4.852 1.075 -1.272 C22 A1EBI 6 A1EBI C02 C7 C 0 1 Y N N N N N 10.564 17.679 -2.771 -5.093 1.588 -0.300 C02 A1EBI 7 A1EBI C03 C8 C 0 1 Y N N N N N 9.411 18.415 -2.597 -5.317 0.252 -0.622 C03 A1EBI 8 A1EBI C05 C9 C 0 1 Y N N N N N 8.297 17.755 -2.185 -4.308 -0.691 -0.447 C05 A1EBI 9 A1EBI C07 C10 C 0 1 Y N N N N N 8.287 16.370 -1.936 -3.080 -0.307 0.046 C07 A1EBI 10 A1EBI C08 C11 C 0 1 Y N N N N N 9.452 15.618 -2.104 -2.848 1.038 0.372 C08 A1EBI 11 A1EBI C09 C12 C 0 1 N N N N N N 9.479 14.164 -1.890 -1.546 1.453 0.895 C09 A1EBI 12 A1EBI C12 C13 C 0 1 N N N N N N 6.531 12.420 -1.664 0.624 -1.311 0.835 C12 A1EBI 13 A1EBI C18 C14 C 0 1 Y N N N N N 6.772 9.287 -2.650 3.763 -0.394 0.308 C18 A1EBI 14 A1EBI C19 C15 C 0 1 Y N N N N N 6.804 10.094 -3.802 4.179 -1.478 -0.435 C19 A1EBI 15 A1EBI C23 C16 C 0 1 Y N N N N N 6.427 7.949 -2.849 4.090 0.890 -0.106 C23 A1EBI 16 A1EBI C25 C17 C 0 1 Y N N N N N 5.962 5.828 -2.639 4.426 3.044 -0.455 C25 A1EBI 17 A1EBI C27 C18 C 0 1 N N N N N N 8.635 11.847 -1.593 0.887 0.821 1.354 C27 A1EBI 18 A1EBI C29 C19 C 0 1 Y N N N N N 10.587 16.305 -2.539 -3.869 1.984 0.193 C29 A1EBI 19 A1EBI F01 F1 F 0 1 N N N N N N 11.680 18.280 -3.179 -6.075 2.499 -0.478 F01 A1EBI 20 A1EBI F06 F2 F 0 1 N N N N N N 7.235 18.568 -2.053 -4.533 -1.986 -0.761 F06 A1EBI 21 A1EBI N11 N1 N 0 1 N N N N N N 7.095 13.599 -1.755 -0.557 -0.780 0.657 N11 A1EBI 22 A1EBI N14 N2 N 0 1 N N N N N N 4.395 13.406 -1.693 0.020 -3.545 0.210 N14 A1EBI 23 A1EBI N16 N3 N 0 1 N N N N N N 7.363 11.350 -1.516 1.530 -0.364 1.259 N16 A1EBI 24 A1EBI N24 N4 N 0 1 Y N N N N N 6.298 6.892 -1.921 3.836 2.154 0.388 N24 A1EBI 25 A1EBI N26 N5 N 0 1 Y N N N N N 5.817 6.020 -4.007 5.021 2.414 -1.426 N26 A1EBI 26 A1EBI O04 O1 O 0 1 N N N N N N 9.296 19.765 -2.810 -6.526 -0.133 -1.107 O04 A1EBI 27 A1EBI O15 O2 O 0 1 N N N N N N 3.026 13.159 -1.504 0.327 -4.911 -0.005 O15 A1EBI 28 A1EBI O28 O3 O 0 1 N N N N N N 9.678 11.244 -1.529 1.359 1.890 1.697 O28 A1EBI 29 A1EBI H1 H1 H 0 1 N N N N N N 4.578 11.373 -1.306 1.946 -3.090 0.782 H1 A1EBI 30 A1EBI H2 H2 H 0 1 N N N N N N 6.178 9.837 -0.670 3.076 -1.623 1.912 H2 A1EBI 31 A1EBI H3 H3 H 0 1 N N N N N N 7.920 9.438 -0.852 3.276 0.096 2.327 H3 A1EBI 32 A1EBI H4 H4 H 0 1 N N N N N N 6.534 10.182 -5.929 5.250 -2.153 -2.159 H4 A1EBI 33 A1EBI H5 H5 H 0 1 N N N N N N 5.967 7.784 -6.211 5.854 0.092 -2.904 H5 A1EBI 34 A1EBI H6 H6 H 0 1 N N N N N N 7.376 15.887 -1.614 -2.298 -1.039 0.182 H6 A1EBI 35 A1EBI H7 H7 H 0 1 N N N N N N 10.460 13.718 -1.819 -1.399 2.467 1.236 H7 A1EBI 36 A1EBI H8 H8 H 0 1 N N N N N N 7.056 11.141 -3.720 3.917 -2.477 -0.118 H8 A1EBI 37 A1EBI H9 H9 H 0 1 N N N N N N 5.809 4.861 -2.183 4.405 4.117 -0.336 H9 A1EBI 38 A1EBI H10 H10 H 0 1 N N N N N N 11.505 15.759 -2.700 -3.695 3.020 0.442 H10 A1EBI 39 A1EBI H13 H13 H 0 1 N N N N N N 6.432 6.936 -0.931 3.331 2.368 1.188 H13 A1EBI 40 A1EBI H15 H15 H 0 1 N N N N N N 8.406 20.041 -2.623 -6.593 -0.094 -2.071 H15 A1EBI 41 A1EBI H16 H16 H 0 1 N N N N N N 2.539 13.965 -1.625 -0.425 -5.440 -0.303 H16 A1EBI 42 # 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 A1EBI C21 C20 DOUB Y N 1 A1EBI C21 C22 SING Y N 2 A1EBI C20 C19 SING Y N 3 A1EBI C22 N26 SING Y N 4 A1EBI C22 C23 DOUB Y N 5 A1EBI N26 C25 DOUB Y N 6 A1EBI C19 C18 DOUB Y N 7 A1EBI F01 C02 SING N N 8 A1EBI C23 C18 SING Y N 9 A1EBI C23 N24 SING Y N 10 A1EBI O04 C03 SING N N 11 A1EBI C02 C03 DOUB Y N 12 A1EBI C02 C29 SING Y N 13 A1EBI C18 C17 SING N N 14 A1EBI C25 N24 SING Y N 15 A1EBI C03 C05 SING Y N 16 A1EBI C29 C08 DOUB Y N 17 A1EBI C05 F06 SING N N 18 A1EBI C05 C07 DOUB Y N 19 A1EBI C08 C07 SING Y N 20 A1EBI C08 C09 SING N N 21 A1EBI C09 C10 DOUB N Z 22 A1EBI C10 N11 SING N N 23 A1EBI C10 C27 SING N N 24 A1EBI N11 C12 DOUB N N 25 A1EBI N14 C13 DOUB N E 26 A1EBI N14 O15 SING N N 27 A1EBI C12 C13 SING N N 28 A1EBI C12 N16 SING N N 29 A1EBI C27 O28 DOUB N N 30 A1EBI C27 N16 SING N N 31 A1EBI N16 C17 SING N N 32 A1EBI C13 H1 SING N N 33 A1EBI C17 H2 SING N N 34 A1EBI C17 H3 SING N N 35 A1EBI C20 H4 SING N N 36 A1EBI C21 H5 SING N N 37 A1EBI C07 H6 SING N N 38 A1EBI C09 H7 SING N N 39 A1EBI C19 H8 SING N N 40 A1EBI C25 H9 SING N N 41 A1EBI C29 H10 SING N N 42 A1EBI N24 H13 SING N N 43 A1EBI O04 H15 SING N N 44 A1EBI O15 H16 SING N N 45 # 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 A1EBI InChI InChI 1.06 "InChI=1S/C19H13F2N5O3/c20-12-4-10(5-13(21)18(12)27)6-15-19(28)26(16(25-15)7-24-29)8-11-2-1-3-14-17(11)23-9-22-14/h1-7,9,27,29H,8H2,(H,22,23)/b15-6-,24-7+" A1EBI InChIKey InChI 1.06 MWUNZPXNBRYTBM-LSGIWYNDSA-N A1EBI SMILES_CANONICAL CACTVS 3.385 "O\N=C\C1=NC(=C/c2cc(F)c(O)c(F)c2)\C(=O)N1Cc3cccc4nc[nH]c34" A1EBI SMILES CACTVS 3.385 "ON=CC1=NC(=Cc2cc(F)c(O)c(F)c2)C(=O)N1Cc3cccc4nc[nH]c34" A1EBI SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1cc(c2c(c1)nc[nH]2)CN3C(=N/C(=C\c4cc(c(c(c4)F)O)F)/C3=O)/C=N/O" A1EBI SMILES "OpenEye OEToolkits" 2.0.7 "c1cc(c2c(c1)nc[nH]2)CN3C(=NC(=Cc4cc(c(c(c4)F)O)F)C3=O)C=NO" # _pdbx_chem_comp_identifier.comp_id A1EBI _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~{Z})-3-(3~{H}-benzimidazol-4-ylmethyl)-5-[[3,5-bis(fluoranyl)-4-oxidanyl-phenyl]methylidene]-2-[(~{E})-hydroxyiminomethyl]imidazol-4-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 A1EBI "Create component" 2024-09-05 PDBC A1EBI "Initial release" 2025-02-12 RCSB #