data_YBF # _chem_comp.id YBF _chem_comp.name "(4M)-4-(1-benzyl-1H-pyrrolo[2,3-b]pyridin-3-yl)-3-nitro-N-phenylbenzamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C27 H20 N4 O3" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-06-12 _chem_comp.pdbx_modified_date 2024-12-13 _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 448.473 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YBF _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 7G6Q _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_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_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 YBF C10 C1 C 0 1 N N N N N N -13.311 6.437 43.654 4.817 -0.445 -1.498 C10 YBF 1 YBF C11 C2 C 0 1 Y N N N N N -12.451 5.218 43.782 5.378 -1.592 -0.698 C11 YBF 2 YBF C13 C3 C 0 1 Y N N N N N -10.500 3.920 43.054 5.453 -3.934 -0.202 C13 YBF 3 YBF C15 C4 C 0 1 Y N N N N N -12.095 3.002 44.728 6.841 -2.408 1.013 C15 YBF 4 YBF C16 C5 C 0 1 Y N N N N N -12.870 4.175 44.645 6.327 -1.355 0.279 C16 YBF 5 YBF C17 C6 C 0 1 Y N N N N N -11.951 10.491 49.781 -1.952 -0.969 0.138 C17 YBF 6 YBF C18 C7 C 0 1 Y N N N N N -11.769 9.932 48.491 -0.590 -0.876 0.119 C18 YBF 7 YBF C19 C8 C 0 1 Y N N N N N -12.898 9.455 47.739 0.024 0.320 -0.262 C19 YBF 8 YBF C20 C9 C 0 1 Y N N N N N -14.194 9.579 48.342 -0.755 1.422 -0.623 C20 YBF 9 YBF C21 C10 C 0 1 Y N N N N N -14.376 10.121 49.590 -2.118 1.331 -0.604 C21 YBF 10 YBF C22 C11 C 0 1 Y N N N N N -13.262 10.561 50.314 -2.733 0.134 -0.223 C22 YBF 11 YBF C23 C12 C 0 1 N N N N N N -13.618 11.008 51.684 -4.205 0.034 -0.202 C23 YBF 12 YBF C1 C13 C 0 1 Y N N N N N -10.115 10.497 44.110 3.143 2.841 2.175 C1 YBF 13 YBF C2 C14 C 0 1 Y N N N N N -10.325 9.551 43.022 4.430 2.550 1.750 C2 YBF 14 YBF N3 N1 N 0 1 Y N N N N N -11.202 8.491 43.087 4.657 1.676 0.792 N3 YBF 15 YBF C4 C15 C 0 1 Y N N N N N -10.842 10.352 45.300 2.071 2.201 1.579 C4 YBF 16 YBF C5 C16 C 0 1 Y N N N N N -11.774 9.305 45.407 2.337 1.280 0.567 C5 YBF 17 YBF C6 C17 C 0 1 Y N N N N N -11.909 8.412 44.275 3.668 1.032 0.187 C6 YBF 18 YBF N7 N2 N 0 1 Y N N N N N -12.889 7.467 44.574 3.636 0.093 -0.818 N7 YBF 19 YBF C8 C18 C 0 1 Y N N N N N -13.375 7.717 45.874 2.349 -0.265 -1.092 C8 YBF 20 YBF C9 C19 C 0 1 Y N N N N N -12.703 8.853 46.409 1.500 0.420 -0.284 C9 YBF 21 YBF C12 C20 C 0 1 Y N N N N N -11.288 5.110 43.012 4.938 -2.881 -0.936 C12 YBF 22 YBF C14 C21 C 0 1 Y N N N N N -10.896 2.871 43.919 6.407 -3.697 0.770 C14 YBF 23 YBF N24 N3 N 0 1 N N N N N N -12.963 12.103 52.238 -4.797 -1.119 0.164 N24 YBF 24 YBF O25 O1 O 0 1 N N N N N N -14.489 10.359 52.334 -4.883 0.993 -0.516 O25 YBF 25 YBF N26 N4 N 1 1 N N N N N N -15.467 9.127 47.699 -0.104 2.688 -1.026 N26 YBF 26 YBF O27 O2 O 0 1 N N N N N N -16.055 8.137 48.122 -0.783 3.649 -1.340 O27 YBF 27 YBF O28 O3 O -1 1 N N N N N N -15.895 9.796 46.796 1.111 2.770 -1.043 O28 YBF 28 YBF C29 C22 C 0 1 Y N N N N N -13.334 12.584 53.572 -6.188 -1.182 0.290 C29 YBF 29 YBF C30 C23 C 0 1 Y N N N N N -12.958 11.830 54.731 -6.863 -2.357 -0.016 C30 YBF 30 YBF C31 C24 C 0 1 Y N N N N N -14.216 13.451 56.145 -8.941 -1.306 0.540 C31 YBF 31 YBF C32 C25 C 0 1 Y N N N N N -14.587 14.213 55.004 -8.272 -0.136 0.852 C32 YBF 32 YBF C33 C26 C 0 1 Y N N N N N -13.398 12.266 56.012 -8.237 -2.415 0.110 C33 YBF 33 YBF C34 C27 C 0 1 Y N N N N N -14.143 13.788 53.700 -6.898 -0.071 0.728 C34 YBF 34 YBF H39 H1 H 0 1 N N N N N N -14.354 6.166 43.872 5.571 0.336 -1.590 H39 YBF 35 YBF H40 H2 H 0 1 N N N N N N -13.239 6.822 42.626 4.536 -0.798 -2.490 H40 YBF 36 YBF H42 H3 H 0 1 N N N N N N -9.619 3.822 42.438 5.114 -4.941 -0.392 H42 YBF 37 YBF H44 H4 H 0 1 N N N N N N -12.391 2.203 45.391 7.583 -2.222 1.776 H44 YBF 38 YBF H45 H5 H 0 1 N N N N N N -13.771 4.278 45.231 6.667 -0.348 0.468 H45 YBF 39 YBF H46 H6 H 0 1 N N N N N N -11.107 10.856 50.347 -2.426 -1.894 0.429 H46 YBF 40 YBF H47 H7 H 0 1 N N N N N N -10.777 9.864 48.071 0.014 -1.727 0.398 H47 YBF 41 YBF H48 H8 H 0 1 N N N N N N -15.368 10.207 50.009 -2.720 2.182 -0.882 H48 YBF 42 YBF H35 H9 H 0 1 N N N N N N -9.405 11.303 44.001 2.980 3.559 2.965 H35 YBF 43 YBF H36 H10 H 0 1 N N N N N N -9.760 9.689 42.112 5.265 3.051 2.216 H36 YBF 44 YBF H37 H11 H 0 1 N N N N N N -10.688 11.035 46.123 1.058 2.408 1.891 H37 YBF 45 YBF H38 H12 H 0 1 N N N N N N -14.134 7.140 46.382 2.050 -0.985 -1.840 H38 YBF 46 YBF H41 H13 H 0 1 N N N N N N -10.984 5.932 42.381 4.193 -3.066 -1.696 H41 YBF 47 YBF H43 H14 H 0 1 N N N N N N -10.304 1.970 43.977 6.812 -4.520 1.340 H43 YBF 48 YBF H49 H15 H 0 1 N N N N N N -12.238 12.563 51.725 -4.258 -1.907 0.340 H49 YBF 49 YBF H50 H16 H 0 1 N N N N N N -12.349 10.943 54.634 -6.313 -3.223 -0.353 H50 YBF 50 YBF H51 H17 H 0 1 N N N N N N -14.549 13.761 57.124 -10.016 -1.354 0.639 H51 YBF 51 YBF H52 H18 H 0 1 N N N N N N -15.194 15.100 55.113 -8.825 0.729 1.188 H52 YBF 52 YBF H53 H19 H 0 1 N N N N N N -13.119 11.707 56.893 -8.762 -3.328 -0.128 H53 YBF 53 YBF H54 H20 H 0 1 N N N N N N -14.409 14.359 52.823 -6.376 0.843 0.971 H54 YBF 54 # 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 YBF C1 C2 DOUB Y N 1 YBF C1 C4 SING Y N 2 YBF C2 N3 SING Y N 3 YBF N3 C6 DOUB Y N 4 YBF C4 C5 DOUB Y N 5 YBF C5 C6 SING Y N 6 YBF C5 C9 SING Y N 7 YBF C6 N7 SING Y N 8 YBF N7 C8 SING Y N 9 YBF N7 C10 SING N N 10 YBF C8 C9 DOUB Y N 11 YBF C9 C19 SING N N 12 YBF C10 C11 SING N N 13 YBF C11 C12 DOUB Y N 14 YBF C11 C16 SING Y N 15 YBF C12 C13 SING Y N 16 YBF C13 C14 DOUB Y N 17 YBF C14 C15 SING Y N 18 YBF C15 C16 DOUB Y N 19 YBF C17 C18 DOUB Y N 20 YBF C17 C22 SING Y N 21 YBF C18 C19 SING Y N 22 YBF C19 C20 DOUB Y N 23 YBF C20 C21 SING Y N 24 YBF C20 N26 SING N N 25 YBF C21 C22 DOUB Y N 26 YBF C22 C23 SING N N 27 YBF C23 N24 SING N N 28 YBF C23 O25 DOUB N N 29 YBF N24 C29 SING N N 30 YBF N26 O27 DOUB N N 31 YBF N26 O28 SING N N 32 YBF C29 C30 DOUB Y N 33 YBF C29 C34 SING Y N 34 YBF C30 C33 SING Y N 35 YBF C31 C32 SING Y N 36 YBF C31 C33 DOUB Y N 37 YBF C32 C34 DOUB Y N 38 YBF C10 H39 SING N N 39 YBF C10 H40 SING N N 40 YBF C13 H42 SING N N 41 YBF C15 H44 SING N N 42 YBF C16 H45 SING N N 43 YBF C17 H46 SING N N 44 YBF C18 H47 SING N N 45 YBF C21 H48 SING N N 46 YBF C1 H35 SING N N 47 YBF C2 H36 SING N N 48 YBF C4 H37 SING N N 49 YBF C8 H38 SING N N 50 YBF C12 H41 SING N N 51 YBF C14 H43 SING N N 52 YBF N24 H49 SING N N 53 YBF C30 H50 SING N N 54 YBF C31 H51 SING N N 55 YBF C32 H52 SING N N 56 YBF C33 H53 SING N N 57 YBF C34 H54 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 YBF SMILES ACDLabs 12.01 "[O-][N+](=O)c1cc(ccc1c1cn(Cc2ccccc2)c2ncccc21)C(=O)Nc1ccccc1" YBF InChI InChI 1.06 "InChI=1S/C27H20N4O3/c32-27(29-21-10-5-2-6-11-21)20-13-14-22(25(16-20)31(33)34)24-18-30(17-19-8-3-1-4-9-19)26-23(24)12-7-15-28-26/h1-16,18H,17H2,(H,29,32)" YBF InChIKey InChI 1.06 AHZNVHKEQIDYLP-UHFFFAOYSA-N YBF SMILES_CANONICAL CACTVS 3.385 "[O-][N+](=O)c1cc(ccc1c2cn(Cc3ccccc3)c4ncccc24)C(=O)Nc5ccccc5" YBF SMILES CACTVS 3.385 "[O-][N+](=O)c1cc(ccc1c2cn(Cc3ccccc3)c4ncccc24)C(=O)Nc5ccccc5" YBF SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)Cn2cc(c3c2nccc3)c4ccc(cc4[N+](=O)[O-])C(=O)Nc5ccccc5" YBF SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)Cn2cc(c3c2nccc3)c4ccc(cc4[N+](=O)[O-])C(=O)Nc5ccccc5" # 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 YBF "SYSTEMATIC NAME" ACDLabs 12.01 "(4M)-4-(1-benzyl-1H-pyrrolo[2,3-b]pyridin-3-yl)-3-nitro-N-phenylbenzamide" YBF "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "3-nitro-~{N}-phenyl-4-[1-(phenylmethyl)pyrrolo[2,3-b]pyridin-3-yl]benzamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YBF "Create component" 2023-06-12 RCSB YBF "Initial release" 2024-12-18 RCSB #