data_W9N
# 
_chem_comp.id                                    W9N 
_chem_comp.name                                  "1-{(1R,3r,5S)-3-[(3M)-4-methyl-3-{3-methyl-4-[(1-methyl-1H-benzimidazol-5-yl)oxy]phenyl}-1H-pyrazolo[3,4-d]pyrimidin-1-yl]-8-azabicyclo[3.2.1]octan-8-yl}propan-1-one" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C31 H33 N7 O2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2023-09-27 
_chem_comp.pdbx_modified_date                    2024-09-27 
_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                        535.639 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     W9N 
_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        8U8X 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
_chem_comp.pdbx_pcm                              Y 
# 
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 
W9N N6  N1  N 0 1 Y N N N N N -21.681 14.223 16.586 -2.078 0.722  1.303  N6  W9N 1  
W9N C18 C1  C 0 1 Y N N N N N -20.779 11.655 17.060 1.339  0.680  0.092  C18 W9N 2  
W9N N5  N2  N 0 1 Y N N N N N -21.787 15.595 16.609 -3.231 1.220  0.687  N5  W9N 3  
W9N C14 C2  C 0 1 N N R N N N -21.874 16.332 15.360 -4.605 0.884  1.068  C14 W9N 4  
W9N C13 C3  C 0 1 N N N N N N -20.595 15.983 14.529 -5.497 0.897  -0.177 C13 W9N 5  
W9N C12 C4  C 0 1 N N R N N N -20.673 16.472 13.063 -5.063 -0.243 -1.112 C12 W9N 6  
W9N C17 C5  C 0 1 Y N N N N N -21.500 12.402 18.019 0.397  0.934  1.089  C17 W9N 7  
W9N C16 C6  C 0 1 N N N N N N -21.354 14.147 21.150 0.664  2.987  -1.370 C16 W9N 8  
W9N C15 C7  C 0 1 N N N N N N -23.121 16.031 14.546 -4.632 -0.508 1.706  C15 W9N 9  
W9N N3  N3  N 0 1 Y N N N N N -21.808 17.362 18.364 -3.552 2.794  -1.208 N3  W9N 10 
W9N C10 C8  C 0 1 N N S N N N -23.006 16.691 13.149 -4.259 -1.551 0.640  C10 W9N 11 
W9N C8  C9  C 0 1 Y N N N N N -21.611 14.992 18.711 -1.467 2.106  -0.348 C8  W9N 12 
W9N C22 C10 C 0 1 Y N N N N N -22.304 11.744 19.009 0.784  0.921  2.428  C22 W9N 13 
W9N C7  C11 C 0 1 Y N N N N N -21.582 13.837 17.860 -1.011 1.219  0.725  C7  W9N 14 
W9N N1  N4  N 0 1 Y N N N N N -21.594 16.467 20.623 -1.593 3.597  -2.140 N1  W9N 15 
W9N C4  C12 C 0 1 Y N N N N N -21.742 16.102 17.884 -2.878 2.066  -0.323 C4  W9N 16 
W9N C19 C13 C 0 1 Y N N N N N -20.784 10.244 17.168 2.648  0.417  0.434  C19 W9N 17 
W9N C20 C14 C 0 1 Y N N N N N -21.510 9.618  18.197 3.030  0.404  1.769  C20 W9N 18 
W9N C21 C15 C 0 1 Y N N N N N -22.291 10.339 19.124 2.095  0.657  2.764  C21 W9N 19 
W9N C2  C16 C 0 1 Y N N N N N -21.732 17.458 19.703 -2.912 3.535  -2.087 C2  W9N 20 
W9N C24 C17 C 0 1 Y N N N N N -20.419 7.648  18.926 5.189  -0.164 1.103  C24 W9N 21 
W9N C25 C18 C 0 1 Y N N N N N -20.290 6.243  18.753 5.743  0.853  0.330  C25 W9N 22 
W9N C26 C19 C 0 1 Y N N N N N -19.240 5.557  19.428 6.628  0.555  -0.683 C26 W9N 23 
W9N C27 C20 C 0 1 Y N N N N N -18.387 6.332  20.241 6.971  -0.766 -0.936 C27 W9N 24 
W9N C28 C21 C 0 1 Y N N N N N -18.510 7.709  20.419 6.417  -1.798 -0.160 C28 W9N 25 
W9N C29 C22 C 0 1 Y N N N N N -19.543 8.415  19.752 5.520  -1.483 0.864  C29 W9N 26 
W9N C31 C23 C 0 1 Y N N N N N -16.893 7.061  21.567 7.740  -2.721 -1.618 C31 W9N 27 
W9N C33 C24 C 0 1 N N N N N N -16.783 4.540  21.175 8.608  -0.718 -2.880 C33 W9N 28 
W9N C34 C25 C 0 1 N N N N N N -21.596 18.791 13.004 -6.279 -2.430 -0.635 C34 W9N 29 
W9N C35 C26 C 0 1 N N N N N N -20.293 19.261 12.812 -6.367 -3.672 0.213  C35 W9N 30 
W9N C37 C27 C 0 1 N N N N N N -20.097 20.520 13.390 -7.538 -4.534 -0.262 C37 W9N 31 
W9N C38 C28 C 0 1 N N N N N N -22.755 15.547 12.143 -2.983 -1.056 -0.080 C38 W9N 32 
W9N C39 C29 C 0 1 N N N N N N -21.223 15.383 12.100 -3.524 -0.183 -1.250 C39 W9N 33 
W9N C40 C30 C 0 1 N N N N N N -23.086 9.612  20.207 2.513  0.643  4.212  C40 W9N 34 
W9N C9  C31 C 0 1 Y N N N N N -21.534 15.222 20.102 -0.839 2.908  -1.300 C9  W9N 35 
W9N N11 N5  N 0 1 N N N N N N -21.744 17.463 13.102 -5.316 -1.518 -0.397 N11 W9N 36 
W9N N30 N6  N 0 1 Y N N N N N -17.309 5.898  20.999 7.805  -1.383 -1.851 N30 W9N 37 
W9N N32 N7  N 0 1 Y N N N N N -17.533 8.192  21.272 6.929  -2.964 -0.630 N32 W9N 38 
W9N O23 O1  O 0 1 N N N N N N -21.459 8.262  18.261 4.321  0.144  2.103  O23 W9N 39 
W9N O36 O2  O 0 1 N N N N N N -22.542 19.585 13.063 -7.076 -2.251 -1.532 O36 W9N 40 
W9N H1  H1  H 0 1 N N N N N N -20.238 12.148 16.266 1.042  0.685  -0.947 H1  W9N 41 
W9N H2  H2  H 0 1 N N N N N N -21.852 17.411 15.574 -4.973 1.618  1.785  H2  W9N 42 
W9N H3  H3  H 0 1 N N N N N N -20.465 14.891 14.528 -6.537 0.753  0.117  H3  W9N 43 
W9N H4  H4  H 0 1 N N N N N N -19.725 16.455 15.010 -5.392 1.853  -0.691 H4  W9N 44 
W9N H5  H5  H 0 1 N N N N N N -19.713 16.881 12.714 -5.574 -0.202 -2.074 H5  W9N 45 
W9N H6  H6  H 0 1 N N N N N N -21.308 14.610 22.147 1.042  2.174  -1.990 H6  W9N 46 
W9N H7  H7  H 0 1 N N N N N N -22.203 13.449 21.109 0.958  3.943  -1.804 H7  W9N 47 
W9N H8  H8  H 0 1 N N N N N N -20.420 13.599 20.956 1.080  2.901  -0.366 H8  W9N 48 
W9N H9  H9  H 0 1 N N N N N N -24.003 16.431 15.068 -3.913 -0.549 2.524  H9  W9N 49 
W9N H10 H10 H 0 1 N N N N N N -23.227 14.942 14.428 -5.631 -0.716 2.088  H10 W9N 50 
W9N H11 H11 H 0 1 N N N N N N -23.894 17.288 12.894 -4.131 -2.546 1.066  H11 W9N 51 
W9N H12 H12 H 0 1 N N N N N N -22.924 12.330 19.671 0.057  1.118  3.202  H12 W9N 52 
W9N H13 H13 H 0 1 N N N N N N -20.229 9.647  16.459 3.378  0.220  -0.338 H13 W9N 53 
W9N H14 H14 H 0 1 N N N N N N -21.788 18.460 20.102 -3.487 4.115  -2.793 H14 W9N 54 
W9N H15 H15 H 0 1 N N N N N N -20.978 5.704  18.119 5.477  1.881  0.526  H15 W9N 55 
W9N H16 H16 H 0 1 N N N N N N -19.103 4.491  19.322 7.054  1.348  -1.280 H16 W9N 56 
W9N H17 H17 H 0 1 N N N N N N -19.662 9.483  19.864 5.089  -2.269 1.466  H17 W9N 57 
W9N H18 H18 H 0 1 N N N N N N -16.055 7.068  22.248 8.282  -3.472 -2.173 H18 W9N 58 
W9N H19 H19 H 0 1 N N N N N N -15.914 4.567  21.849 9.590  -0.476 -2.474 H19 W9N 59 
W9N H20 H20 H 0 1 N N N N N N -17.564 3.898  21.609 8.723  -1.382 -3.737 H20 W9N 60 
W9N H21 H21 H 0 1 N N N N N N -16.476 4.136  20.199 8.109  0.199  -3.195 H21 W9N 61 
W9N H22 H22 H 0 1 N N N N N N -19.588 18.549 13.266 -5.440 -4.239 0.124  H22 W9N 62 
W9N H23 H23 H 0 1 N N N N N N -20.097 19.332 11.732 -6.522 -3.391 1.255  H23 W9N 63 
W9N H24 H24 H 0 1 N Y N N N N -19.062 20.848 13.214 -8.465 -3.967 -0.174 H24 W9N 64 
W9N H25 H25 H 0 1 N N N N N N -20.792 21.243 12.938 -7.383 -4.815 -1.304 H25 W9N 65 
W9N H26 H26 H 0 1 N N N N N N -20.283 20.459 14.472 -7.602 -5.432 0.351  H26 W9N 66 
W9N H27 H27 H 0 1 N N N N N N -23.143 15.814 11.149 -2.370 -0.462 0.599  H27 W9N 67 
W9N H28 H28 H 0 1 N N N N N N -23.234 14.618 12.486 -2.412 -1.901 -0.464 H28 W9N 68 
W9N H29 H29 H 0 1 N N N N N N -20.932 14.380 12.445 -3.214 -0.598 -2.209 H29 W9N 69 
W9N H30 H30 H 0 1 N N N N N N -20.846 15.544 11.079 -3.176 0.845  -1.150 H30 W9N 70 
W9N H31 H31 H 0 1 N N N N N N -22.462 9.498  21.106 2.398  -0.364 4.613  H31 W9N 71 
W9N H32 H32 H 0 1 N N N N N N -23.985 10.196 20.456 3.556  0.949  4.291  H32 W9N 72 
W9N H33 H33 H 0 1 N N N N N N -23.384 8.619  19.839 1.887  1.333  4.777  H33 W9N 73 
# 
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 
W9N C39 C38 SING N N 1  
W9N C39 C12 SING N N 2  
W9N C38 C10 SING N N 3  
W9N C35 C34 SING N N 4  
W9N C35 C37 SING N N 5  
W9N C34 O36 DOUB N N 6  
W9N C34 N11 SING N N 7  
W9N C12 N11 SING N N 8  
W9N C12 C13 SING N N 9  
W9N N11 C10 SING N N 10 
W9N C10 C15 SING N N 11 
W9N C13 C14 SING N N 12 
W9N C15 C14 SING N N 13 
W9N C14 N5  SING N N 14 
W9N N6  N5  SING Y N 15 
W9N N6  C7  DOUB Y N 16 
W9N N5  C4  SING Y N 17 
W9N C18 C19 DOUB Y N 18 
W9N C18 C17 SING Y N 19 
W9N C19 C20 SING Y N 20 
W9N C7  C17 SING N N 21 
W9N C7  C8  SING Y N 22 
W9N C4  N3  DOUB Y N 23 
W9N C4  C8  SING Y N 24 
W9N C17 C22 DOUB Y N 25 
W9N C20 O23 SING N N 26 
W9N C20 C21 DOUB Y N 27 
W9N O23 C24 SING N N 28 
W9N N3  C2  SING Y N 29 
W9N C8  C9  DOUB Y N 30 
W9N C25 C24 DOUB Y N 31 
W9N C25 C26 SING Y N 32 
W9N C24 C29 SING Y N 33 
W9N C22 C21 SING Y N 34 
W9N C21 C40 SING N N 35 
W9N C26 C27 DOUB Y N 36 
W9N C2  N1  DOUB Y N 37 
W9N C29 C28 DOUB Y N 38 
W9N C9  N1  SING Y N 39 
W9N C9  C16 SING N N 40 
W9N C27 C28 SING Y N 41 
W9N C27 N30 SING Y N 42 
W9N C28 N32 SING Y N 43 
W9N N30 C33 SING N N 44 
W9N N30 C31 SING Y N 45 
W9N N32 C31 DOUB Y N 46 
W9N C18 H1  SING N N 47 
W9N C14 H2  SING N N 48 
W9N C13 H3  SING N N 49 
W9N C13 H4  SING N N 50 
W9N C12 H5  SING N N 51 
W9N C16 H6  SING N N 52 
W9N C16 H7  SING N N 53 
W9N C16 H8  SING N N 54 
W9N C15 H9  SING N N 55 
W9N C15 H10 SING N N 56 
W9N C10 H11 SING N N 57 
W9N C22 H12 SING N N 58 
W9N C19 H13 SING N N 59 
W9N C2  H14 SING N N 60 
W9N C25 H15 SING N N 61 
W9N C26 H16 SING N N 62 
W9N C29 H17 SING N N 63 
W9N C31 H18 SING N N 64 
W9N C33 H19 SING N N 65 
W9N C33 H20 SING N N 66 
W9N C33 H21 SING N N 67 
W9N C35 H22 SING N N 68 
W9N C35 H23 SING N N 69 
W9N C37 H24 SING N N 70 
W9N C37 H25 SING N N 71 
W9N C37 H26 SING N N 72 
W9N C38 H27 SING N N 73 
W9N C38 H28 SING N N 74 
W9N C39 H29 SING N N 75 
W9N C39 H30 SING N N 76 
W9N C40 H31 SING N N 77 
W9N C40 H32 SING N N 78 
W9N C40 H33 SING N N 79 
# 
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 
W9N SMILES           ACDLabs              12.01 "Cn1cnc2cc(ccc12)Oc1ccc(cc1C)c1nn(c2ncnc(C)c21)C1CC2CCC(C1)N2C(=O)CC"                                                                                                                                            
W9N InChI            InChI                1.06  "InChI=1S/C31H33N7O2/c1-5-28(39)37-21-7-8-22(37)14-23(13-21)38-31-29(19(3)32-16-33-31)30(35-38)20-6-11-27(18(2)12-20)40-24-9-10-26-25(15-24)34-17-36(26)4/h6,9-12,15-17,21-23H,5,7-8,13-14H2,1-4H3/t21-,22+,23+" 
W9N InChIKey         InChI                1.06  HOVNOYPBTGQGSF-JKHIJQBDSA-N                                                                                                                                                                                      
W9N SMILES_CANONICAL CACTVS               3.385 "CCC(=O)N1[C@H]2CC[C@@H]1C[C@@H](C2)n3nc(c4ccc(Oc5ccc6n(C)cnc6c5)c(C)c4)c7c(C)ncnc37"                                                                                                                            
W9N SMILES           CACTVS               3.385 "CCC(=O)N1[CH]2CC[CH]1C[CH](C2)n3nc(c4ccc(Oc5ccc6n(C)cnc6c5)c(C)c4)c7c(C)ncnc37"                                                                                                                                 
W9N SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CCC(=O)N1[C@@H]2CC[C@H]1CC(C2)n3c4c(c(ncn4)C)c(n3)c5ccc(c(c5)C)Oc6ccc7c(c6)ncn7C"                                                                                                                               
W9N SMILES           "OpenEye OEToolkits" 2.0.7 "CCC(=O)N1C2CCC1CC(C2)n3c4c(c(ncn4)C)c(n3)c5ccc(c(c5)C)Oc6ccc7c(c6)ncn7C"                                                                                                                                        
# 
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 
W9N "SYSTEMATIC NAME" ACDLabs              12.01 "1-{(1R,3r,5S)-3-[(3M)-4-methyl-3-{3-methyl-4-[(1-methyl-1H-benzimidazol-5-yl)oxy]phenyl}-1H-pyrazolo[3,4-d]pyrimidin-1-yl]-8-azabicyclo[3.2.1]octan-8-yl}propan-1-one" 
W9N "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "1-[(1~{S},5~{R})-3-[4-methyl-3-[3-methyl-4-(1-methylbenzimidazol-5-yl)oxy-phenyl]pyrazolo[3,4-d]pyrimidin-1-yl]-8-azabicyclo[3.2.1]octan-8-yl]propan-1-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 
W9N "Create component" 2023-09-27 RCSB 
W9N "Initial release"  2024-06-12 RCSB 
W9N "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            W9N 
_pdbx_chem_comp_pcm.modified_residue_id                CYS 
_pdbx_chem_comp_pcm.type                               None 
_pdbx_chem_comp_pcm.category                           "Covalent chemical modification" 
_pdbx_chem_comp_pcm.position                           "Amino-acid side chain" 
_pdbx_chem_comp_pcm.polypeptide_position               "Any position" 
_pdbx_chem_comp_pcm.comp_id_linking_atom               C37 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   SG 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
