data_K9J
# 
_chem_comp.id                                    K9J 
_chem_comp.name                                  "1-{4-[2-{[(2R)-1-(dimethylamino)propan-2-yl]oxy}-7-(3-hydroxynaphthalen-1-yl)-5,6,7,8-tetrahydropyrido[3,4-d]pyrimidin-4-yl]piperazin-1-yl}propan-1-one" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C29 H38 N6 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2018-11-14 
_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                        518.650 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     K9J 
_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        6N2K 
_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 
K9J C18 C1  C 0 1 Y N N N N N 19.169 3.826  -25.680 -4.459 -1.142 -1.562 C18 K9J 1  
K9J C13 C2  C 0 1 N N N N N N 27.575 1.358  -22.268 4.214  -2.606 -1.312 C13 K9J 2  
K9J C12 C3  C 0 1 N N N N N N 26.882 2.710  -22.055 3.367  -1.334 -1.429 C12 K9J 3  
K9J C17 C4  C 0 1 Y N N N N N 19.316 3.858  -24.294 -3.896 -1.079 -0.307 C17 K9J 4  
K9J C16 C5  C 0 1 N N N N N N 24.842 1.155  -21.900 3.228  -1.111 0.982  C16 K9J 5  
K9J C15 C6  C 0 1 N N N N N N 25.660 0.511  -20.798 4.069  -2.374 1.197  C15 K9J 6  
K9J C10 C7  C 0 1 Y N N N N N 24.590 3.608  -22.283 1.576  -0.191 -0.418 C10 K9J 7  
K9J C8  C8  C 0 1 Y N N N N N 24.350 5.784  -21.701 1.160  2.062  -0.649 C8  K9J 8  
K9J C22 C9  C 0 1 Y N N N N N 18.188 4.095  -23.448 -4.714 -1.235 0.833  C22 K9J 9  
K9J N2  N1  N 0 1 N N N N N N 20.620 3.647  -23.683 -2.527 -0.864 -0.164 N2  K9J 10 
K9J C5  C10 C 0 1 Y N N N N N 23.281 3.605  -22.801 0.200  -0.433 -0.465 C5  K9J 11 
K9J C6  C11 C 0 1 N N N N N N 22.708 2.411  -23.589 -0.305 -1.846 -0.350 C6  K9J 12 
K9J C1  C12 C 0 1 N N N N N N 21.621 2.942  -24.570 -1.754 -1.921 -0.835 C1  K9J 13 
K9J C4  C13 C 0 1 Y N N N N N 22.547 4.797  -22.719 -0.653 0.634  -0.611 C4  K9J 14 
K9J C19 C14 C 0 1 Y N N N N N 17.896 4.081  -26.275 -5.831 -1.353 -1.718 C19 K9J 15 
K9J C20 C15 C 0 1 Y N N N N N 16.783 4.352  -25.489 -6.651 -1.502 -0.623 C20 K9J 16 
K9J C21 C16 C 0 1 Y N N N N N 16.928 4.338  -24.056 -6.104 -1.454 0.670  C21 K9J 17 
K9J C3  C17 C 0 1 N N N N N N 21.163 4.965  -23.268 -2.146 0.455  -0.682 C3  K9J 18 
K9J N7  N2  N 0 1 Y N N N N N 23.099 5.909  -22.187 -0.145 1.860  -0.697 N7  K9J 19 
K9J N9  N3  N 0 1 Y N N N N N 25.142 4.721  -21.752 2.014  1.060  -0.512 N9  K9J 20 
K9J N11 N4  N 0 1 N N N N N N 25.437 2.455  -22.302 2.470  -1.239 -0.269 N11 K9J 21 
K9J N14 N5  N 0 1 N N N N N N 27.069 0.344  -21.314 4.886  -2.601 -0.004 N14 K9J 22 
K9J C23 C18 C 0 1 N N N N N N 27.871 -0.608 -20.769 6.216  -2.801 0.091  C23 K9J 23 
K9J C24 C19 C 0 1 N N N N N N 29.184 -0.904 -21.468 6.885  -2.792 1.441  C24 K9J 24 
K9J O25 O1  O 0 1 N N N N N N 27.505 -1.237 -19.746 6.874  -2.988 -0.910 O25 K9J 25 
K9J C26 C20 C 0 1 N N N N N N 30.419 -0.487 -20.525 8.384  -3.041 1.270  C26 K9J 26 
K9J C27 C21 C 0 1 Y N N N N N 15.776 4.582  -23.252 -6.916 -1.603 1.809  C27 K9J 27 
K9J C28 C22 C 0 1 Y N N N N N 15.870 4.545  -21.837 -6.355 -1.551 3.048  C28 K9J 28 
K9J C29 C23 C 0 1 Y N N N N N 17.139 4.264  -21.286 -4.985 -1.352 3.206  C29 K9J 29 
K9J C30 C24 C 0 1 Y N N N N N 18.308 4.097  -22.040 -4.173 -1.176 2.127  C30 K9J 30 
K9J O31 O2  O 0 1 N N N N N N 17.830 4.042  -27.669 -6.363 -1.411 -2.967 O31 K9J 31 
K9J O32 O3  O 0 1 N N N N N N 24.827 6.960  -21.220 1.636  3.326  -0.740 O32 K9J 32 
K9J C33 C25 C 0 1 N N R N N N 26.088 6.963  -20.495 0.674  4.373  -0.886 C33 K9J 33 
K9J C34 C26 C 0 1 N N N N N N 26.605 8.385  -20.349 1.214  5.655  -0.251 C34 K9J 34 
K9J N35 N6  N 0 1 N N N N N N 26.714 8.888  -21.717 1.473  5.423  1.176  N35 K9J 35 
K9J C36 C27 C 0 1 N N N N N N 28.109 9.001  -22.159 2.211  6.548  1.767  C36 K9J 36 
K9J C37 C28 C 0 1 N N N N N N 26.036 10.222 -21.786 0.222  5.173  1.905  C37 K9J 37 
K9J C38 C29 C 0 1 N N N N N N 25.971 6.299  -19.116 0.404  4.614  -2.373 C38 K9J 38 
K9J H1  H1  H 0 1 N N N N N N 20.021 3.607  -26.306 -3.835 -1.023 -2.435 H1  K9J 39 
K9J H2  H2  H 0 1 N N N N N N 27.382 1.013  -23.295 3.571  -3.483 -1.390 H2  K9J 40 
K9J H3  H3  H 0 1 N N N N N N 28.658 1.482  -22.120 4.959  -2.624 -2.107 H3  K9J 41 
K9J H4  H4  H 0 1 N N N N N N 27.268 3.457  -22.765 4.022  -0.463 -1.455 H4  K9J 42 
K9J H5  H5  H 0 1 N N N N N N 27.040 3.066  -21.026 2.777  -1.373 -2.344 H5  K9J 43 
K9J H6  H6  H 0 1 N N N N N N 23.817 1.323  -21.538 2.537  -0.988 1.816  H6  K9J 44 
K9J H7  H7  H 0 1 N N N N N N 24.818 0.484  -22.771 3.885  -0.242 0.923  H7  K9J 45 
K9J H8  H8  H 0 1 N N N N N N 25.661 1.155  -19.906 4.720  -2.237 2.062  H8  K9J 46 
K9J H9  H9  H 0 1 N N N N N N 25.236 -0.471 -20.541 3.412  -3.227 1.364  H9  K9J 47 
K9J H10 H10 H 0 1 N N N N N N 22.258 1.688  -22.892 0.315  -2.503 -0.960 H10 K9J 48 
K9J H11 H11 H 0 1 N N N N N N 23.513 1.921  -24.157 -0.255 -2.165 0.691  H11 K9J 49 
K9J H12 H12 H 0 1 N N N N N N 21.144 2.110  -25.109 -2.173 -2.895 -0.585 H12 K9J 50 
K9J H13 H13 H 0 1 N N N N N N 22.061 3.644  -25.294 -1.787 -1.770 -1.914 H13 K9J 51 
K9J H14 H14 H 0 1 N N N N N N 15.828 4.569  -25.944 -7.710 -1.664 -0.757 H14 K9J 52 
K9J H15 H15 H 0 1 N N N N N N 21.195 5.637  -24.139 -2.471 0.543  -1.718 H15 K9J 53 
K9J H16 H16 H 0 1 N N N N N N 20.514 5.399  -22.494 -2.631 1.229  -0.088 H16 K9J 54 
K9J H17 H17 H 0 1 N N N N N N 29.243 -1.980 -21.691 6.729  -1.824 1.918  H17 K9J 55 
K9J H18 H18 H 0 1 N N N N N N 29.234 -0.332 -22.406 6.455  -3.577 2.065  H18 K9J 56 
K9J H19 H19 H 0 1 N N N N N N 31.365 -0.706 -21.041 8.868  -3.034 2.246  H19 K9J 57 
K9J H20 H20 H 0 1 N N N N N N 30.363 0.589  -20.302 8.540  -4.009 0.793  H20 K9J 58 
K9J H21 H21 H 0 1 N N N N N N 30.373 -1.059 -19.586 8.814  -2.256 0.646  H21 K9J 59 
K9J H22 H22 H 0 1 N N N N N N 14.828 4.796  -23.722 -7.979 -1.757 1.701  H22 K9J 60 
K9J H23 H23 H 0 1 N N N N N N 15.009 4.724  -21.209 -6.980 -1.665 3.920  H23 K9J 61 
K9J H24 H24 H 0 1 N N N N N N 17.214 4.172  -20.213 -4.564 -1.314 4.200  H24 K9J 62 
K9J H25 H25 H 0 1 N N N N N N 19.268 3.974  -21.561 -3.115 -1.010 2.266  H25 K9J 63 
K9J H26 H26 H 0 1 N N N N N N 16.941 4.225  -27.950 -6.381 -2.301 -3.346 H26 K9J 64 
K9J H27 H27 H 0 1 N N N N N N 26.829 6.394  -21.076 -0.254 4.085  -0.391 H27 K9J 65 
K9J H28 H28 H 0 1 N N N N N N 27.588 8.391  -19.855 2.142  5.943  -0.746 H28 K9J 66 
K9J H29 H29 H 0 1 N N N N N N 25.899 8.996  -19.767 0.480  6.453  -0.362 H29 K9J 67 
K9J H31 H31 H 0 1 N N N N N N 28.593 8.015  -22.103 1.625  7.462  1.662  H31 K9J 68 
K9J H32 H32 H 0 1 N N N N N N 28.136 9.364  -23.197 2.389  6.351  2.824  H32 K9J 69 
K9J H33 H33 H 0 1 N N N N N N 28.643 9.709  -21.509 3.165  6.667  1.254  H33 K9J 70 
K9J H34 H34 H 0 1 N N N N N N 24.993 10.121 -21.452 -0.269 4.293  1.491  H34 K9J 71 
K9J H35 H35 H 0 1 N N N N N N 26.562 10.935 -21.134 0.443  5.005  2.958  H35 K9J 72 
K9J H36 H36 H 0 1 N N N N N N 26.055 10.590 -22.823 -0.435 6.037  1.804  H36 K9J 73 
K9J H37 H37 H 0 1 N N N N N N 26.948 6.327  -18.611 -0.330 5.412  -2.484 H37 K9J 74 
K9J H38 H38 H 0 1 N N N N N N 25.229 6.840  -18.510 1.331  4.902  -2.868 H38 K9J 75 
K9J H39 H39 H 0 1 N N N N N N 25.652 5.253  -19.239 0.019  3.700  -2.825 H39 K9J 76 
# 
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 
K9J O31 C19 SING N N 1  
K9J C19 C18 DOUB Y N 2  
K9J C19 C20 SING Y N 3  
K9J C18 C17 SING Y N 4  
K9J C20 C21 DOUB Y N 5  
K9J C1  N2  SING N N 6  
K9J C1  C6  SING N N 7  
K9J C17 N2  SING N N 8  
K9J C17 C22 DOUB Y N 9  
K9J C21 C22 SING Y N 10 
K9J C21 C27 SING Y N 11 
K9J N2  C3  SING N N 12 
K9J C6  C5  SING N N 13 
K9J C22 C30 SING Y N 14 
K9J C3  C4  SING N N 15 
K9J C27 C28 DOUB Y N 16 
K9J C5  C4  DOUB Y N 17 
K9J C5  C10 SING Y N 18 
K9J C4  N7  SING Y N 19 
K9J N11 C10 SING N N 20 
K9J N11 C12 SING N N 21 
K9J N11 C16 SING N N 22 
K9J C10 N9  DOUB Y N 23 
K9J C13 C12 SING N N 24 
K9J C13 N14 SING N N 25 
K9J N7  C8  DOUB Y N 26 
K9J C36 N35 SING N N 27 
K9J C30 C29 DOUB Y N 28 
K9J C16 C15 SING N N 29 
K9J C28 C29 SING Y N 30 
K9J C37 N35 SING N N 31 
K9J N9  C8  SING Y N 32 
K9J N35 C34 SING N N 33 
K9J C8  O32 SING N N 34 
K9J C24 C23 SING N N 35 
K9J C24 C26 SING N N 36 
K9J N14 C15 SING N N 37 
K9J N14 C23 SING N N 38 
K9J O32 C33 SING N N 39 
K9J C23 O25 DOUB N N 40 
K9J C33 C34 SING N N 41 
K9J C33 C38 SING N N 42 
K9J C18 H1  SING N N 43 
K9J C13 H2  SING N N 44 
K9J C13 H3  SING N N 45 
K9J C12 H4  SING N N 46 
K9J C12 H5  SING N N 47 
K9J C16 H6  SING N N 48 
K9J C16 H7  SING N N 49 
K9J C15 H8  SING N N 50 
K9J C15 H9  SING N N 51 
K9J C6  H10 SING N N 52 
K9J C6  H11 SING N N 53 
K9J C1  H12 SING N N 54 
K9J C1  H13 SING N N 55 
K9J C20 H14 SING N N 56 
K9J C3  H15 SING N N 57 
K9J C3  H16 SING N N 58 
K9J C24 H17 SING N N 59 
K9J C24 H18 SING N N 60 
K9J C26 H19 SING N N 61 
K9J C26 H20 SING N N 62 
K9J C26 H21 SING N N 63 
K9J C27 H22 SING N N 64 
K9J C28 H23 SING N N 65 
K9J C29 H24 SING N N 66 
K9J C30 H25 SING N N 67 
K9J O31 H26 SING N N 68 
K9J C33 H27 SING N N 69 
K9J C34 H28 SING N N 70 
K9J C34 H29 SING N N 71 
K9J C36 H31 SING N N 72 
K9J C36 H32 SING N N 73 
K9J C36 H33 SING N N 74 
K9J C37 H34 SING N N 75 
K9J C37 H35 SING N N 76 
K9J C37 H36 SING N N 77 
K9J C38 H37 SING N N 78 
K9J C38 H38 SING N N 79 
K9J C38 H39 SING N N 80 
# 
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 
K9J SMILES           ACDLabs              12.01 "c5c(N3Cc1c(c(nc(OC(CN(C)C)C)n1)N2CCN(CC2)C(=O)CC)CC3)c4ccccc4cc5O"                                                                                                                               
K9J InChI            InChI                1.03  "InChI=1S/C29H38N6O3/c1-5-27(37)33-12-14-34(15-13-33)28-24-10-11-35(26-17-22(36)16-21-8-6-7-9-23(21)26)19-25(24)30-29(31-28)38-20(2)18-32(3)4/h6-9,16-17,20,36H,5,10-15,18-19H2,1-4H3/t20-/m1/s1" 
K9J InChIKey         InChI                1.03  XWVXFKORKNADOR-HXUWFJFHSA-N                                                                                                                                                                       
K9J SMILES_CANONICAL CACTVS               3.385 "CCC(=O)N1CCN(CC1)c2nc(O[C@H](C)CN(C)C)nc3CN(CCc23)c4cc(O)cc5ccccc45"                                                                                                                             
K9J SMILES           CACTVS               3.385 "CCC(=O)N1CCN(CC1)c2nc(O[CH](C)CN(C)C)nc3CN(CCc23)c4cc(O)cc5ccccc45"                                                                                                                              
K9J SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "CCC(=O)N1CCN(CC1)c2c3c(nc(n2)O[C@H](C)CN(C)C)CN(CC3)c4cc(cc5c4cccc5)O"                                                                                                                           
K9J SMILES           "OpenEye OEToolkits" 2.0.6 "CCC(=O)N1CCN(CC1)c2c3c(nc(n2)OC(C)CN(C)C)CN(CC3)c4cc(cc5c4cccc5)O"                                                                                                                               
# 
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 
K9J "SYSTEMATIC NAME" ACDLabs              12.01 "1-{4-[2-{[(2R)-1-(dimethylamino)propan-2-yl]oxy}-7-(3-hydroxynaphthalen-1-yl)-5,6,7,8-tetrahydropyrido[3,4-d]pyrimidin-4-yl]piperazin-1-yl}propan-1-one"   
K9J "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "1-[4-[2-[(2~{R})-1-(dimethylamino)propan-2-yl]oxy-7-(3-oxidanylnaphthalen-1-yl)-6,8-dihydro-5~{H}-pyrido[3,4-d]pyrimidin-4-yl]piperazin-1-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 
K9J "Create component" 2018-11-14 RCSB 
K9J "Initial release"  2018-12-12 RCSB 
K9J "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            K9J 
_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               C26 
_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      ? 
# 
