data_A1D84
# 
_chem_comp.id                                    A1D84 
_chem_comp.name                                  "2-azanyl-5-[2-[(3~{R})-3-azanylpyrrolidin-1-yl]pyridin-4-yl]-3-(2,6-dimethyl-3-oxidanyl-phenyl)benzamide" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C24 H27 N5 O2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2024-06-11 
_chem_comp.pdbx_modified_date                    2024-09-06 
_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                        417.503 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     A1D84 
_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        8ZUL 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBC 
# 
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 
A1D84 N1  N1  N 0 1 Y N N N N N -8.756  4.431  -18.999 -3.743 2.017  -0.363 N1  A1D84 1  
A1D84 N3  N2  N 0 1 N N N N N N -11.019 11.674 -15.268 3.505  -2.199 0.132  N3  A1D84 2  
A1D84 C4  C1  C 0 1 Y N N N N N -9.776  8.167  -17.220 -0.102 -0.112 -0.105 C4  A1D84 3  
A1D84 C5  C2  C 0 1 Y N N N N N -11.012 8.773  -17.576 1.094  0.582  0.069  C5  A1D84 4  
A1D84 C6  C3  C 0 1 Y N N N N N -11.402 9.970  -16.927 2.297  -0.109 0.148  C6  A1D84 5  
A1D84 C7  C4  C 0 1 Y N N N N N -9.368  6.863  -17.879 -1.382 0.632  -0.196 C7  A1D84 6  
A1D84 C8  C5  C 0 1 Y N N N N N -8.053  6.450  -17.994 -1.409 2.029  -0.102 C8  A1D84 7  
A1D84 C10 C6  C 0 1 Y N N N N N -10.026 4.767  -18.882 -3.765 0.696  -0.457 C10 A1D84 8  
A1D84 C13 C7  C 0 1 Y N N N N N -12.789 11.649 -18.296 4.041  0.900  1.617  C13 A1D84 9  
A1D84 C15 C8  C 0 1 Y N N N N N -15.200 11.510 -18.288 5.938  2.027  0.686  C15 A1D84 10 
A1D84 C17 C9  C 0 1 Y N N N N N -13.922 9.958  -16.942 4.293  1.064  -0.775 C17 A1D84 11 
A1D84 C20 C10 C 0 1 N N R N N N -13.239 3.290  -19.931 -7.291 0.262  -0.042 C20 A1D84 12 
A1D84 C21 C11 C 0 1 N N N N N N -12.634 3.909  -18.949 -6.098 1.003  -0.695 C21 A1D84 13 
A1D84 C22 C12 C 0 1 N N N N N N -8.522  10.488 -14.475 1.106  -3.674 -0.224 C22 A1D84 14 
A1D84 C24 C13 C 0 1 N N N N N N -11.495 12.338 -18.797 3.260  0.437  2.820  C24 A1D84 15 
A1D84 C1  C14 C 0 1 Y N N N N N -10.631 10.506 -15.926 2.308  -1.507 0.053  C1  A1D84 16 
A1D84 C2  C15 C 0 1 Y N N N N N -9.406  9.875  -15.575 1.102  -2.203 -0.122 C2  A1D84 17 
A1D84 C3  C16 C 0 1 Y N N N N N -8.994  8.716  -16.231 -0.100 -1.500 -0.201 C3  A1D84 18 
A1D84 C9  C17 C 0 1 Y N N N N N -7.764  5.210  -18.587 -2.617 2.685  -0.191 C9  A1D84 19 
A1D84 C11 C18 C 0 1 Y N N N N N -10.405 5.992  -18.317 -2.590 -0.041 -0.377 C11 A1D84 20 
A1D84 C12 C19 C 0 1 Y N N N N N -12.734 10.562 -17.385 3.568  0.633  0.333  C12 A1D84 21 
A1D84 C14 C20 C 0 1 Y N N N N N -13.997 12.109 -18.728 5.221  1.595  1.787  C14 A1D84 22 
A1D84 C16 C21 C 0 1 Y N N N N N -15.134 10.415 -17.383 5.474  1.765  -0.596 C16 A1D84 23 
A1D84 N2  N3  N 0 1 N N N N N N -11.062 3.843  -19.347 -4.978 0.040  -0.637 N2  A1D84 24 
A1D84 C18 C22 C 0 1 N N N N N N -10.879 2.621  -19.758 -5.232 -0.911 0.461  C18 A1D84 25 
A1D84 C19 C23 C 0 1 N N N N N N -12.201 2.298  -20.518 -6.587 -0.528 1.093  C19 A1D84 26 
A1D84 N4  N4  N 0 1 N N N N N N -7.501  9.679  -13.928 -0.034 -4.332 -0.512 N4  A1D84 27 
A1D84 O1  O1  O 0 1 N N N N N N -8.679  11.652 -14.065 2.137  -4.293 -0.047 O1  A1D84 28 
A1D84 O2  O2  O 0 1 N N N N N N -16.354 9.814  -16.928 6.178  2.197  -1.675 O2  A1D84 29 
A1D84 C23 C24 C 0 1 N N N N N N -13.868 8.794  -15.962 3.788  0.778  -2.166 C23 A1D84 30 
A1D84 N5  N5  N 0 1 N N N N N N -14.460 2.566  -19.407 -8.266 1.214  0.506  N5  A1D84 31 
A1D84 H1  H1  H 0 1 N N N N N N -10.337 11.909 -14.576 4.344  -1.714 0.171  H1  A1D84 32 
A1D84 H2  H2  H 0 1 N N N N N N -11.093 12.420 -15.930 3.504  -3.169 0.147  H2  A1D84 33 
A1D84 H3  H3  H 0 1 N N N N N N -11.644 8.327  -18.330 1.086  1.659  0.142  H3  A1D84 34 
A1D84 H4  H4  H 0 1 N N N N N N -7.253  7.077  -17.630 -0.494 2.585  0.038  H4  A1D84 35 
A1D84 H5  H5  H 0 1 N N N N N N -16.154 11.878 -18.634 6.859  2.574  0.824  H5  A1D84 36 
A1D84 H6  H6  H 0 1 N N N N N N -13.549 3.983  -20.728 -7.766 -0.415 -0.752 H6  A1D84 37 
A1D84 H7  H7  H 0 1 N N N N N N -12.975 4.952  -18.876 -6.328 1.255  -1.730 H7  A1D84 38 
A1D84 H8  H8  H 0 1 N N N N N N -12.816 3.396  -17.993 -5.856 1.903  -0.130 H8  A1D84 39 
A1D84 H9  H9  H 0 1 N N N N N N -11.230 13.161 -18.117 3.589  -0.563 3.104  H9  A1D84 40 
A1D84 H10 H10 H 0 1 N N N N N N -10.675 11.605 -18.822 3.428  1.124  3.649  H10 A1D84 41 
A1D84 H11 H11 H 0 1 N N N N N N -11.661 12.738 -19.808 2.198  0.413  2.576  H11 A1D84 42 
A1D84 H12 H12 H 0 1 N N N N N N -8.059  8.248  -15.962 -1.029 -2.033 -0.336 H12 A1D84 43 
A1D84 H13 H13 H 0 1 N N N N N N -6.739  4.892  -18.707 -2.643 3.763  -0.119 H13 A1D84 44 
A1D84 H14 H14 H 0 1 N N N N N N -11.445 6.265  -18.218 -2.612 -1.118 -0.454 H14 A1D84 45 
A1D84 H15 H15 H 0 1 N N N N N N -14.036 12.941 -19.415 5.587  1.801  2.782  H15 A1D84 46 
A1D84 H16 H16 H 0 1 N N N N N N -10.735 1.937  -18.909 -5.280 -1.927 0.068  H16 A1D84 47 
A1D84 H17 H17 H 0 1 N N N N N N -10.011 2.557  -20.431 -4.439 -0.839 1.205  H17 A1D84 48 
A1D84 H18 H18 H 0 1 N N N N N N -12.510 1.258  -20.335 -6.438 0.105  1.968  H18 A1D84 49 
A1D84 H19 H19 H 0 1 N N N N N N -12.077 2.459  -21.599 -7.157 -1.419 1.353  H19 A1D84 50 
A1D84 H20 H20 H 0 1 N N N N N N -6.905  10.042 -13.212 -0.032 -5.300 -0.579 H20 A1D84 51 
A1D84 H21 H21 H 0 1 N N N N N N -7.374  8.743  -14.257 -0.857 -3.839 -0.653 H21 A1D84 52 
A1D84 H22 H22 H 0 1 N N N N N N -16.154 9.101  -16.333 6.835  1.563  -1.995 H22 A1D84 53 
A1D84 H23 H23 H 0 1 N N N N N N -13.895 9.180  -14.932 3.147  1.596  -2.495 H23 A1D84 54 
A1D84 H24 H24 H 0 1 N N N N N N -14.732 8.134  -16.129 4.633  0.681  -2.847 H24 A1D84 55 
A1D84 H25 H25 H 0 1 N N N N N N -12.938 8.227  -16.117 3.217  -0.151 -2.161 H25 A1D84 56 
A1D84 H26 H26 H 0 1 N N N N N N -15.109 3.231  -19.036 -9.043 0.731  0.932  H26 A1D84 57 
A1D84 H27 H27 H 0 1 N N N N N N -14.892 2.059  -20.153 -7.828 1.842  1.163  H27 A1D84 58 
# 
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 
A1D84 C19 C20 SING N N 1  
A1D84 C19 C18 SING N N 2  
A1D84 C20 N5  SING N N 3  
A1D84 C20 C21 SING N N 4  
A1D84 C18 N2  SING N N 5  
A1D84 N2  C21 SING N N 6  
A1D84 N2  C10 SING N N 7  
A1D84 N1  C10 DOUB Y N 8  
A1D84 N1  C9  SING Y N 9  
A1D84 C10 C11 SING Y N 10 
A1D84 C24 C13 SING N N 11 
A1D84 C14 C13 DOUB Y N 12 
A1D84 C14 C15 SING Y N 13 
A1D84 C9  C8  DOUB Y N 14 
A1D84 C11 C7  DOUB Y N 15 
A1D84 C13 C12 SING Y N 16 
A1D84 C15 C16 DOUB Y N 17 
A1D84 C8  C7  SING Y N 18 
A1D84 C7  C4  SING N N 19 
A1D84 C5  C4  DOUB Y N 20 
A1D84 C5  C6  SING Y N 21 
A1D84 C12 C17 DOUB Y N 22 
A1D84 C12 C6  SING N N 23 
A1D84 C16 C17 SING Y N 24 
A1D84 C16 O2  SING N N 25 
A1D84 C4  C3  SING Y N 26 
A1D84 C17 C23 SING N N 27 
A1D84 C6  C1  DOUB Y N 28 
A1D84 C3  C2  DOUB Y N 29 
A1D84 C1  C2  SING Y N 30 
A1D84 C1  N3  SING N N 31 
A1D84 C2  C22 SING N N 32 
A1D84 C22 O1  DOUB N N 33 
A1D84 C22 N4  SING N N 34 
A1D84 N3  H1  SING N N 35 
A1D84 N3  H2  SING N N 36 
A1D84 C5  H3  SING N N 37 
A1D84 C8  H4  SING N N 38 
A1D84 C15 H5  SING N N 39 
A1D84 C20 H6  SING N N 40 
A1D84 C21 H7  SING N N 41 
A1D84 C21 H8  SING N N 42 
A1D84 C24 H9  SING N N 43 
A1D84 C24 H10 SING N N 44 
A1D84 C24 H11 SING N N 45 
A1D84 C3  H12 SING N N 46 
A1D84 C9  H13 SING N N 47 
A1D84 C11 H14 SING N N 48 
A1D84 C14 H15 SING N N 49 
A1D84 C18 H16 SING N N 50 
A1D84 C18 H17 SING N N 51 
A1D84 C19 H18 SING N N 52 
A1D84 C19 H19 SING N N 53 
A1D84 N4  H20 SING N N 54 
A1D84 N4  H21 SING N N 55 
A1D84 O2  H22 SING N N 56 
A1D84 C23 H23 SING N N 57 
A1D84 C23 H24 SING N N 58 
A1D84 C23 H25 SING N N 59 
A1D84 N5  H26 SING N N 60 
A1D84 N5  H27 SING N N 61 
# 
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 
A1D84 InChI            InChI                1.06  "InChI=1S/C24H27N5O2/c1-13-3-4-20(30)14(2)22(13)18-9-16(10-19(23(18)26)24(27)31)15-5-7-28-21(11-15)29-8-6-17(25)12-29/h3-5,7,9-11,17,30H,6,8,12,25-26H2,1-2H3,(H2,27,31)/t17-/m1/s1" 
A1D84 InChIKey         InChI                1.06  OVPMEUICXCKOJF-QGZVFWFLSA-N                                                                                                                                                          
A1D84 SMILES_CANONICAL CACTVS               3.385 "Cc1ccc(O)c(C)c1c2cc(cc(C(N)=O)c2N)c3ccnc(c3)N4CC[C@@H](N)C4"                                                                                                                        
A1D84 SMILES           CACTVS               3.385 "Cc1ccc(O)c(C)c1c2cc(cc(C(N)=O)c2N)c3ccnc(c3)N4CC[CH](N)C4"                                                                                                                          
A1D84 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1ccc(c(c1c2cc(cc(c2N)C(=O)N)c3ccnc(c3)N4CC[C@H](C4)N)C)O"                                                                                                                         
A1D84 SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1ccc(c(c1c2cc(cc(c2N)C(=O)N)c3ccnc(c3)N4CCC(C4)N)C)O"                                                                                                                             
# 
_pdbx_chem_comp_identifier.comp_id           A1D84 
_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        "2-azanyl-5-[2-[(3~{R})-3-azanylpyrrolidin-1-yl]pyridin-4-yl]-3-(2,6-dimethyl-3-oxidanyl-phenyl)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 
A1D84 "Create component" 2024-06-11 PDBC 
A1D84 "Initial release"  2024-09-11 RCSB 
# 
