data_YFM
# 
_chem_comp.id                                    YFM 
_chem_comp.name                                  "7-[[2,6-bis(oxidanylidene)cyclohexylidene]-oxidanyl-methyl]-1,6-dimethyl-4-[[4-(trifluoromethyloxy)phenyl]methyl]-3~{H}-1,4-benzodiazepine-2,5-dione" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C26 H23 F3 N2 O6" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-11-30 
_chem_comp.pdbx_modified_date                    2024-11-22 
_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                        516.466 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     YFM 
_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        8X6C 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBJ 
_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 
YFM C13 C1  C 0 1 N N N N N N 3.173  -3.519 81.594 -4.248 -1.177 0.254  C13 YFM 1  
YFM C17 C2  C 0 1 N N N N N N 4.792  -6.495 83.645 -1.856 -3.559 -1.527 C17 YFM 2  
YFM C20 C3  C 0 1 N N N N N N 5.329  -4.817 81.200 -4.194 -3.609 0.185  C20 YFM 3  
YFM C24 C4  C 0 1 N N N N N N -4.279 -3.339 83.192 1.793  2.677  1.300  C24 YFM 4  
YFM C26 C5  C 0 1 N N N N N N -0.366 0.362  85.544 -2.755 4.944  -0.792 C26 YFM 5  
YFM C28 C6  C 0 1 Y N N N N N -4.384 -3.974 85.796 2.584  0.390  1.937  C28 YFM 6  
YFM C01 C7  C 0 1 Y N N N N N 2.002  -3.019 82.347 -3.594 0.115  0.010  C01 YFM 7  
YFM C02 C8  C 0 1 Y N N N N N 2.442  -1.857 83.224 -4.183 1.052  -0.852 C02 YFM 8  
YFM C03 C9  C 0 1 Y N N N N N 1.343  -1.169 83.982 -3.578 2.251  -1.073 C03 YFM 9  
YFM C04 C10 C 0 1 Y N N N N N -0.074 -1.674 83.812 -2.364 2.573  -0.454 C04 YFM 10 
YFM C05 C11 C 0 1 Y N N N N N -0.593 -2.850 82.924 -1.760 1.648  0.402  C05 YFM 11 
YFM C06 C12 C 0 1 Y N N N N N 0.570  -3.542 82.137 -2.387 0.418  0.637  C06 YFM 12 
YFM C08 C13 C 0 1 N N N N N N -2.626 -0.846 84.941 -0.540 4.070  -0.945 C08 YFM 13 
YFM C09 C14 C 0 1 N N N N N N -3.177 -1.846 84.104 0.512  3.001  -0.854 C09 YFM 14 
YFM C11 C15 C 0 1 N N N N N N -1.858 -3.224 82.827 -0.482 1.897  1.081  C11 YFM 15 
YFM C12 C16 C 0 1 N N N N N N 0.427  -4.708 81.171 -1.751 -0.583 1.567  C12 YFM 16 
YFM C14 C17 C 0 1 N N N N N N 3.994  -4.736 81.898 -3.651 -2.361 -0.198 C14 YFM 17 
YFM C16 C18 C 0 1 N N N N N N 3.706  -5.536 83.152 -2.510 -2.296 -1.030 C16 YFM 18 
YFM C18 C19 C 0 1 N N N N N N 6.189  -5.954 83.319 -2.066 -4.677 -0.503 C18 YFM 19 
YFM C19 C20 C 0 1 N N N N N N 6.398  -5.709 81.817 -3.567 -4.893 -0.293 C19 YFM 20 
YFM C27 C21 C 0 1 Y N N N N N -4.936 -3.168 84.595 2.689  1.482  1.097  C27 YFM 21 
YFM C29 C22 C 0 1 Y N N N N N -4.942 -3.749 87.197 3.404  -0.706 1.753  C29 YFM 22 
YFM C30 C23 C 0 1 Y N N N N N -6.066 -2.743 87.412 4.331  -0.712 0.720  C30 YFM 23 
YFM C31 C24 C 0 1 Y N N N N N -6.619 -1.924 86.244 4.430  0.383  -0.125 C31 YFM 24 
YFM C32 C25 C 0 1 Y N N N N N -6.067 -2.135 84.836 3.615  1.481  0.070  C32 YFM 25 
YFM C34 C26 C 0 1 N N N N N N -5.681 -1.719 89.442 6.069  -1.725 -0.547 C34 YFM 26 
YFM F35 F1  F 0 1 N N N N N N -5.075 -0.820 88.600 5.373  -1.569 -1.750 F35 YFM 27 
YFM F36 F2  F 0 1 N N N N N N -6.376 -1.018 90.385 6.816  -2.908 -0.590 F36 YFM 28 
YFM F37 F3  F 0 1 N N N N N N -4.716 -2.464 90.067 6.928  -0.637 -0.360 F37 YFM 29 
YFM N07 N1  N 0 1 N N N N N N -1.014 -0.691 84.814 -1.827 3.813  -0.730 N07 YFM 30 
YFM N10 N2  N 0 1 N N N N N N -2.951 -2.715 83.427 0.564  2.504  0.521  N10 YFM 31 
YFM O15 O1  O 0 1 N N N N N N 3.418  -2.786 80.683 -5.420 -1.224 0.916  O15 YFM 32 
YFM O21 O2  O 0 1 N N N N N N 2.378  -5.651 83.556 -2.054 -1.216 -1.347 O21 YFM 33 
YFM O22 O3  O 0 1 N N N N N N 5.522  -4.171 80.212 -5.173 -3.647 0.903  O22 YFM 34 
YFM O23 O4  O 0 1 N N N N N N -2.111 -4.137 82.133 -0.371 1.526  2.234  O23 YFM 35 
YFM O25 O5  O 0 1 N N N N N N -3.276 -0.146 85.621 -0.206 5.202  -1.222 O25 YFM 36 
YFM O33 O6  O 0 1 N N N N N N -6.554 -2.555 88.708 5.139  -1.789 0.537  O33 YFM 37 
YFM H1  H1  H 0 1 N N N N N N 4.698  -6.616 84.734 -2.302 -3.849 -2.478 H1  YFM 38 
YFM H2  H2  H 0 1 N N N N N N 4.660  -7.471 83.155 -0.788 -3.387 -1.663 H2  YFM 39 
YFM H3  H3  H 0 1 N N N N N N -4.844 -2.806 82.413 1.543  2.768  2.357  H3  YFM 40 
YFM H4  H4  H 0 1 N N N N N N -4.185 -4.400 82.916 2.308  3.578  0.970  H4  YFM 41 
YFM H5  H5  H 0 1 N N N N N N -1.111 0.905  86.144 -2.850 5.391  0.197  H5  YFM 42 
YFM H6  H6  H 0 1 N N N N N N 0.397  -0.069 86.209 -2.373 5.689  -1.492 H6  YFM 43 
YFM H7  H7  H 0 1 N N N N N N 0.113  1.057  84.838 -3.731 4.596  -1.130 H7  YFM 44 
YFM H8  H8  H 0 1 N N N N N N -3.599 -4.700 85.641 1.863  0.395  2.741  H8  YFM 45 
YFM H9  H9  H 0 1 N N N N N N 3.474  -1.548 83.297 -5.119 0.822  -1.340 H9  YFM 46 
YFM H10 H10 H 0 1 N N N N N N 1.558  -0.334 84.633 -4.042 2.965  -1.738 H10 YFM 47 
YFM H11 H11 H 0 1 N N N N N N -3.758 -1.216 83.414 0.261  2.182  -1.528 H11 YFM 48 
YFM H12 H12 H 0 1 N N N N N N -3.858 -2.334 84.817 1.481  3.417  -1.130 H12 YFM 49 
YFM H13 H13 H 0 1 N N N N N N 0.523  -5.655 81.722 -0.992 -1.150 1.027  H13 YFM 50 
YFM H14 H14 H 0 1 N N N N N N -0.560 -4.664 80.687 -1.287 -0.059 2.403  H14 YFM 51 
YFM H15 H15 H 0 1 N N N N N N 1.214  -4.648 80.405 -2.514 -1.265 1.944  H15 YFM 52 
YFM H18 H18 H 0 1 N N N N N N 6.937  -6.683 83.663 -1.614 -5.598 -0.871 H18 YFM 53 
YFM H19 H19 H 0 1 N N N N N N 6.331  -5.003 83.853 -1.602 -4.397 0.443  H19 YFM 54 
YFM H20 H20 H 0 1 N N N N N N 6.385  -6.680 81.299 -3.721 -5.673 0.452  H20 YFM 55 
YFM H21 H21 H 0 1 N N N N N N 7.378  -5.230 81.674 -4.026 -5.193 -1.235 H21 YFM 56 
YFM H22 H22 H 0 1 N N N N N N -4.542 -4.301 88.035 3.325  -1.558 2.412  H22 YFM 57 
YFM H23 H23 H 0 1 N N N N N N -7.399 -1.197 86.415 5.150  0.381  -0.930 H23 YFM 58 
YFM H24 H24 H 0 1 N N N N N N -6.464 -1.565 84.009 3.694  2.336  -0.586 H24 YFM 59 
YFM H16 H16 H 0 1 N N N N N N 4.223  -3.063 80.261 -5.793 -0.381 1.207  H16 YFM 60 
# 
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 
YFM O22 C20 DOUB N N 1  
YFM O15 C13 SING N N 2  
YFM C12 C06 SING N N 3  
YFM C20 C19 SING N N 4  
YFM C20 C14 SING N N 5  
YFM C13 C14 DOUB N N 6  
YFM C13 C01 SING N N 7  
YFM C19 C18 SING N N 8  
YFM C14 C16 SING N N 9  
YFM O23 C11 DOUB N N 10 
YFM C06 C01 DOUB Y N 11 
YFM C06 C05 SING Y N 12 
YFM C01 C02 SING Y N 13 
YFM C11 C05 SING N N 14 
YFM C11 N10 SING N N 15 
YFM C05 C04 DOUB Y N 16 
YFM C16 O21 DOUB N N 17 
YFM C16 C17 SING N N 18 
YFM C24 N10 SING N N 19 
YFM C24 C27 SING N N 20 
YFM C02 C03 DOUB Y N 21 
YFM C18 C17 SING N N 22 
YFM N10 C09 SING N N 23 
YFM C04 C03 SING Y N 24 
YFM C04 N07 SING N N 25 
YFM C09 C08 SING N N 26 
YFM C27 C32 DOUB Y N 27 
YFM C27 C28 SING Y N 28 
YFM N07 C08 SING N N 29 
YFM N07 C26 SING N N 30 
YFM C32 C31 SING Y N 31 
YFM C08 O25 DOUB N N 32 
YFM C28 C29 DOUB Y N 33 
YFM C31 C30 DOUB Y N 34 
YFM C29 C30 SING Y N 35 
YFM C30 O33 SING N N 36 
YFM F35 C34 SING N N 37 
YFM O33 C34 SING N N 38 
YFM C34 F37 SING N N 39 
YFM C34 F36 SING N N 40 
YFM C17 H1  SING N N 41 
YFM C17 H2  SING N N 42 
YFM C24 H3  SING N N 43 
YFM C24 H4  SING N N 44 
YFM C26 H5  SING N N 45 
YFM C26 H6  SING N N 46 
YFM C26 H7  SING N N 47 
YFM C28 H8  SING N N 48 
YFM C02 H9  SING N N 49 
YFM C03 H10 SING N N 50 
YFM C09 H11 SING N N 51 
YFM C09 H12 SING N N 52 
YFM C12 H13 SING N N 53 
YFM C12 H14 SING N N 54 
YFM C12 H15 SING N N 55 
YFM C18 H18 SING N N 56 
YFM C18 H19 SING N N 57 
YFM C19 H20 SING N N 58 
YFM C19 H21 SING N N 59 
YFM C29 H22 SING N N 60 
YFM C31 H23 SING N N 61 
YFM C32 H24 SING N N 62 
YFM O15 H16 SING N N 63 
# 
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 
YFM InChI            InChI                1.06  "InChI=1S/C26H23F3N2O6/c1-14-17(24(35)23-19(32)4-3-5-20(23)33)10-11-18-22(14)25(36)31(13-21(34)30(18)2)12-15-6-8-16(9-7-15)37-26(27,28)29/h6-11,35H,3-5,12-13H2,1-2H3" 
YFM InChIKey         InChI                1.06  ZRRLVHNNQUIUDH-UHFFFAOYSA-N                                                                                                                                            
YFM SMILES_CANONICAL CACTVS               3.385 "CN1C(=O)CN(Cc2ccc(OC(F)(F)F)cc2)C(=O)c3c(C)c(ccc13)[C](O)=[C]4C(=O)C[CH2]CC4=O"                                                                                       
YFM SMILES           CACTVS               3.385 "CN1C(=O)CN(Cc2ccc(OC(F)(F)F)cc2)C(=O)c3c(C)c(ccc13)[C](O)=[C]4C(=O)C[CH2]CC4=O"                                                                                       
YFM SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1c(ccc2c1C(=O)N(CC(=O)N2C)Cc3ccc(cc3)OC(F)(F)F)C(=C4C(=O)CCCC4=O)O"                                                                                                 
YFM SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1c(ccc2c1C(=O)N(CC(=O)N2C)Cc3ccc(cc3)OC(F)(F)F)C(=C4C(=O)CCCC4=O)O"                                                                                                 
# 
_pdbx_chem_comp_identifier.comp_id           YFM 
_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        "7-[[2,6-bis(oxidanylidene)cyclohexylidene]-oxidanyl-methyl]-1,6-dimethyl-4-[[4-(trifluoromethyloxy)phenyl]methyl]-3~{H}-1,4-benzodiazepine-2,5-dione" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
YFM "Create component"  2023-11-30 PDBJ 
YFM "Modify descriptor" 2024-07-30 PDBJ 
YFM "Modify formula"    2024-07-30 PDBJ 
YFM "Initial release"   2024-11-27 RCSB 
# 
