data_WYX
# 
_chem_comp.id                                    WYX 
_chem_comp.name                                  "5,11-dimethyl-2-[(1-piperidin-4-ylpyrazol-4-yl)amino]pyrimido[4,5-b][1,4]benzodiazepin-6-one" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C21 H24 N8 O" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-05-24 
_chem_comp.pdbx_modified_date                    2024-05-31 
_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                        404.468 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     WYX 
_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        8P5I 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
# 
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 
WYX C1  C1  C 0 1 N N N N N N 1.300  3.208  37.356 3.637  -1.205 -2.577 C1  WYX 1  
WYX C2  C2  C 0 1 Y N N N N N 3.579  3.081  36.407 4.361  -1.196 -0.206 C2  WYX 2  
WYX C3  C3  C 0 1 Y N N N N N 4.126  2.786  37.658 4.624  -2.537 0.040  C3  WYX 3  
WYX C4  C4  C 0 1 Y N N N N N 5.499  2.821  37.881 5.513  -2.898 1.033  C4  WYX 4  
WYX C5  C5  C 0 1 Y N N N N N 6.341  3.212  36.873 6.139  -1.926 1.796  C5  WYX 5  
WYX C6  C6  C 0 1 Y N N N N N 5.828  3.480  35.619 5.895  -0.591 1.560  C6  WYX 6  
WYX C8  C7  C 0 1 N N N N N N 3.992  3.829  33.999 4.786  1.215  0.272  C8  WYX 7  
WYX C9  C8  C 0 1 Y N N N N N 2.227  2.080  33.902 2.400  1.112  -0.182 C9  WYX 8  
WYX C10 C9  C 0 1 Y N N N N N 1.818  1.055  33.076 1.237  1.729  0.260  C10 WYX 9  
WYX C11 C10 C 0 1 Y N N N N N 0.731  0.056  34.784 0.002  -0.048 -0.537 C11 WYX 10 
WYX C14 C11 C 0 1 Y N N N N N -1.484 -2.264 36.755 -3.675 -0.442 -0.414 C14 WYX 11 
WYX C15 C12 C 0 1 Y N N N N N -0.484 -0.525 37.645 -2.458 1.258  0.364  C15 WYX 12 
WYX C17 C13 C 0 1 N N N N N N -2.410 -4.473 38.817 -6.360 -0.412 1.461  C17 WYX 13 
WYX C18 C14 C 0 1 N N N N N N -3.613 -5.298 38.384 -7.883 -0.550 1.506  C18 WYX 14 
WYX C20 C15 C 0 1 N N N N N N -4.200 -2.659 38.593 -6.502 -0.303 -1.028 C20 WYX 15 
WYX N1  N1  N 0 1 N N N N N N 2.145  2.939  36.198 3.426  -0.842 -1.173 N1  WYX 16 
WYX C7  C16 C 0 1 Y N N N N N 4.446  3.376  35.352 5.012  -0.210 0.545  C7  WYX 17 
WYX O1  O1  O 0 1 N N N N N N 4.649  4.715  33.421 5.749  1.954  0.345  O1  WYX 18 
WYX N2  N2  N 0 1 N N N N N N 2.958  3.193  33.376 3.624  1.765  -0.048 N2  WYX 19 
WYX N3  N3  N 0 1 Y N N N N N 1.135  0.001  33.496 0.072  1.127  0.069  N3  WYX 20 
WYX N4  N4  N 0 1 Y N N N N N 1.074  1.000  35.668 1.089  -0.678 -0.962 N4  WYX 21 
WYX C12 C17 C 0 1 Y N N N N N 1.808  2.046  35.247 2.291  -0.141 -0.790 C12 WYX 22 
WYX N5  N5  N 0 1 N N N N N N -0.025 -1.032 35.206 -1.238 -0.635 -0.732 N5  WYX 23 
WYX C13 C18 C 0 1 Y N N N N N -0.622 -1.222 36.456 -2.404 0.018  -0.288 C13 WYX 24 
WYX N6  N6  N 0 1 Y N N N N N -1.818 -2.149 38.051 -4.502 0.482  0.142  N6  WYX 25 
WYX N7  N7  N 0 1 Y N N N N N -1.225 -1.063 38.610 -3.710 1.532  0.625  N7  WYX 26 
WYX C16 C19 C 0 1 N N N N N N -2.729 -2.969 38.894 -5.962 0.396  0.222  C16 WYX 27 
WYX N8  N8  N 0 1 N N N N N N -4.828 -5.043 39.171 -8.351 -1.226 0.288  N8  WYX 28 
WYX C19 C20 C 0 1 N N N N N N -5.147 -3.613 39.315 -8.021 -0.445 -0.911 C19 WYX 29 
WYX C21 C21 C 0 1 N N N N N N 2.601  3.617  32.014 3.626  3.210  -0.287 C21 WYX 30 
WYX H1  H1  H 0 1 N N N N N N 1.778  3.969  37.991 3.193  -2.181 -2.771 H1  WYX 31 
WYX H2  H2  H 0 1 N N N N N N 0.320  3.576  37.017 3.168  -0.459 -3.219 H2  WYX 32 
WYX H3  H3  H 0 1 N N N N N N 1.164  2.282  37.934 4.706  -1.243 -2.786 H3  WYX 33 
WYX H4  H4  H 0 1 N N N N N N 3.467  2.524  38.472 4.133  -3.300 -0.547 H4  WYX 34 
WYX H5  H5  H 0 1 N N N N N N 5.899  2.541  38.844 5.720  -3.942 1.216  H5  WYX 35 
WYX H6  H6  H 0 1 N N N N N N 7.400  3.310  37.058 6.822  -2.217 2.581  H6  WYX 36 
WYX H7  H7  H 0 1 N N N N N N 6.499  3.775  34.826 6.387  0.162  2.159  H7  WYX 37 
WYX H8  H8  H 0 1 N N N N N N 2.069  1.115  32.027 1.282  2.688  0.755  H8  WYX 38 
WYX H10 H9  H 0 1 N N N N N N -1.825 -3.028 36.072 -3.975 -1.371 -0.876 H10 WYX 39 
WYX H11 H10 H 0 1 N N N N N N 0.145  0.344  37.772 -1.610 1.878  0.614  H11 WYX 40 
WYX H13 H11 H 0 1 N N N N N N -2.084 -4.817 39.810 -6.015 0.103  2.357  H13 WYX 41 
WYX H14 H12 H 0 1 N N N N N N -1.597 -4.625 38.092 -5.905 -1.401 1.412  H14 WYX 42 
WYX H15 H13 H 0 1 N N N N N N -3.829 -5.068 37.330 -8.169 -1.137 2.379  H15 WYX 43 
WYX H16 H14 H 0 1 N N N N N N -3.355 -6.363 38.481 -8.336 0.439  1.569  H16 WYX 44 
WYX H20 H15 H 0 1 N N N N N N -4.419 -1.630 38.915 -6.259 0.289  -1.910 H20 WYX 45 
WYX H21 H16 H 0 1 N N N N N N -4.366 -2.747 37.509 -6.050 -1.291 -1.117 H21 WYX 46 
WYX H9  H17 H 0 1 N N N N N N -0.157 -1.764 34.538 -1.303 -1.496 -1.175 H9  WYX 47 
WYX H12 H18 H 0 1 N N N N N N -2.556 -2.669 39.938 -6.384 1.398  0.290  H12 WYX 48 
WYX H17 H20 H 0 1 N N N N N N -5.598 -5.495 38.720 -7.975 -2.160 0.226  H17 WYX 49 
WYX H19 H21 H 0 1 N N N N N N -5.126 -3.366 40.387 -8.474 0.544  -0.837 H19 WYX 50 
WYX H18 H22 H 0 1 N N N N N N -6.161 -3.449 38.920 -8.408 -0.955 -1.794 H18 WYX 51 
WYX H23 H23 H 0 1 N N N N N N 3.225  4.474  31.721 3.430  3.733  0.650  H23 WYX 52 
WYX H24 H24 H 0 1 N N N N N N 2.770  2.785  31.315 4.598  3.513  -0.676 H24 WYX 53 
WYX H22 H25 H 0 1 N N N N N N 1.541  3.909  31.987 2.851  3.460  -1.011 H22 WYX 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 
WYX C21 N2  SING N N 1  
WYX C10 N3  DOUB Y N 2  
WYX C10 C9  SING Y N 3  
WYX N2  C9  SING N N 4  
WYX N2  C8  SING N N 5  
WYX O1  C8  DOUB N N 6  
WYX N3  C11 SING Y N 7  
WYX C9  C12 DOUB Y N 8  
WYX C8  C7  SING N N 9  
WYX C11 N5  SING N N 10 
WYX C11 N4  DOUB Y N 11 
WYX N5  C13 SING N N 12 
WYX C12 N4  SING Y N 13 
WYX C12 N1  SING N N 14 
WYX C7  C6  DOUB Y N 15 
WYX C7  C2  SING Y N 16 
WYX C6  C5  SING Y N 17 
WYX N1  C2  SING N N 18 
WYX N1  C1  SING N N 19 
WYX C2  C3  DOUB Y N 20 
WYX C13 C14 DOUB Y N 21 
WYX C13 C15 SING Y N 22 
WYX C14 N6  SING Y N 23 
WYX C5  C4  DOUB Y N 24 
WYX C15 N7  DOUB Y N 25 
WYX C3  C4  SING Y N 26 
WYX N6  N7  SING Y N 27 
WYX N6  C16 SING N N 28 
WYX C18 C17 SING N N 29 
WYX C18 N8  SING N N 30 
WYX C20 C16 SING N N 31 
WYX C20 C19 SING N N 32 
WYX C17 C16 SING N N 33 
WYX N8  C19 SING N N 34 
WYX C1  H1  SING N N 35 
WYX C1  H2  SING N N 36 
WYX C1  H3  SING N N 37 
WYX C3  H4  SING N N 38 
WYX C4  H5  SING N N 39 
WYX C5  H6  SING N N 40 
WYX C6  H7  SING N N 41 
WYX C10 H8  SING N N 42 
WYX C14 H10 SING N N 43 
WYX C15 H11 SING N N 44 
WYX C17 H13 SING N N 45 
WYX C17 H14 SING N N 46 
WYX C18 H15 SING N N 47 
WYX C18 H16 SING N N 48 
WYX C20 H20 SING N N 49 
WYX C20 H21 SING N N 50 
WYX N5  H9  SING N N 51 
WYX C16 H12 SING N N 52 
WYX N8  H17 SING N N 53 
WYX C19 H19 SING N N 54 
WYX C19 H18 SING N N 55 
WYX C21 H23 SING N N 56 
WYX C21 H24 SING N N 57 
WYX C21 H22 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 
WYX InChI            InChI                1.06  "InChI=1S/C21H24N8O/c1-27-17-6-4-3-5-16(17)20(30)28(2)18-12-23-21(26-19(18)27)25-14-11-24-29(13-14)15-7-9-22-10-8-15/h3-6,11-13,15,22H,7-10H2,1-2H3,(H,23,25,26)" 
WYX InChIKey         InChI                1.06  LKOFXMLMYKWELM-UHFFFAOYSA-N                                                                                                                                       
WYX SMILES_CANONICAL CACTVS               3.385 "CN1C(=O)c2ccccc2N(C)c3nc(Nc4cnn(c4)C5CCNCC5)ncc13"                                                                                                               
WYX SMILES           CACTVS               3.385 "CN1C(=O)c2ccccc2N(C)c3nc(Nc4cnn(c4)C5CCNCC5)ncc13"                                                                                                               
WYX SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CN1c2ccccc2C(=O)N(c3c1nc(nc3)Nc4cnn(c4)C5CCNCC5)C"                                                                                                               
WYX SMILES           "OpenEye OEToolkits" 2.0.7 "CN1c2ccccc2C(=O)N(c3c1nc(nc3)Nc4cnn(c4)C5CCNCC5)C"                                                                                                               
# 
_pdbx_chem_comp_identifier.comp_id           WYX 
_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        "5,11-dimethyl-2-[(1-piperidin-4-ylpyrazol-4-yl)amino]pyrimido[4,5-b][1,4]benzodiazepin-6-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 
WYX "Create component" 2023-05-24 PDBE 
WYX "Initial release"  2024-06-05 RCSB 
# 
