data_P7U
# 
_chem_comp.id                                    P7U 
_chem_comp.name                                  "{(2S)-4-[(7P)-7-(8-chloronaphthalen-1-yl)-8-fluoro-2-{[(4R,7as)-tetrahydro-1H-pyrrolizin-7a(5H)-yl]methoxy}pyrido[4,3-d]pyrimidin-4-yl]-1-[(3S)-2,2,3-trihydroxybutanoyl]piperazin-2-yl}acetonitrile" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C35 H37 Cl F N7 O5" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-05-25 
_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                        690.164 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     P7U 
_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        8CX5 
_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 
P7U C10  C1  C  0 1 Y N N N N N 2.909  -23.956 -7.825  4.447  -2.576 -0.891 C10  P7U 1  
P7U C14  C2  C  0 1 Y N N N N N 6.342  -22.622 -8.700  1.947  0.186  -0.414 C14  P7U 2  
P7U C15  C3  C  0 1 Y N N N N N 7.150  -23.342 -7.899  0.760  -0.592 -0.404 C15  P7U 3  
P7U C16  C4  C  0 1 Y N N N N N 6.556  -24.318 -7.012  0.852  -1.979 -0.554 C16  P7U 4  
P7U C11  C5  C  0 1 Y N N N N N 4.423  -23.798 -7.685  3.164  -1.857 -0.719 C11  P7U 5  
P7U C12  C6  C  0 1 Y N N N N N 4.921  -22.864 -8.627  3.173  -0.477 -0.576 C12  P7U 6  
P7U C02  C7  C  0 1 Y N N N N N 2.134  -21.842 -6.751  4.329  -3.438 1.406  C02  P7U 7  
P7U C03  C8  C  0 1 Y N N N N N 1.072  -20.977 -6.412  4.879  -4.183 2.407  C03  P7U 8  
P7U C04  C9  C  0 1 Y N N N N N -0.228 -21.304 -6.792  6.087  -4.850 2.221  C04  P7U 9  
P7U C05  C10 C  0 1 Y N N N N N -0.472 -22.454 -7.487  6.753  -4.777 1.036  C05  P7U 10 
P7U C06  C11 C  0 1 Y N N N N N 0.609  -23.345 -7.821  6.216  -4.018 -0.019 C06  P7U 11 
P7U C07  C12 C  0 1 Y N N N N N 0.286  -24.525 -8.540  6.876  -3.922 -1.256 C07  P7U 12 
P7U C08  C13 C  0 1 Y N N N N N 1.269  -25.406 -8.920  6.338  -3.176 -2.261 C08  P7U 13 
P7U C09  C14 C  0 1 Y N N N N N 2.584  -25.103 -8.561  5.133  -2.503 -2.091 C09  P7U 14 
P7U C18  C15 C  0 1 Y N N N N N 8.561  -23.098 -8.001  -0.477 0.077  -0.241 C18  P7U 15 
P7U C20  C16 C  0 1 N N N N N N 10.877 -24.278 -7.636  -2.424 -0.338 1.002  C20  P7U 16 
P7U C21  C17 C  0 1 N N N N N N 11.896 -23.462 -6.851  -3.641 -1.266 1.071  C21  P7U 17 
P7U C23  C18 C  0 1 N N N N N N 12.881 -24.241 -4.603  -5.729 -0.887 -0.160 C23  P7U 18 
P7U C24  C19 C  0 1 N N N N N N 14.291 -24.653 -5.153  -6.476 -0.892 1.149  C24  P7U 19 
P7U C32  C20 C  0 1 N N S N N N 14.952 -23.307 -5.189  -7.975 -0.746 0.881  C32  P7U 20 
P7U C33  C21 C  0 1 N N N N N N 15.279 -22.554 -6.534  -8.739 -0.816 2.205  C33  P7U 21 
P7U C35  C22 C  0 1 N N S N N N 10.453 -23.275 -4.892  -3.680 -1.266 -1.453 C35  P7U 22 
P7U C36  C23 C  0 1 N N N N N N 10.124 -21.759 -4.972  -4.599 -0.870 -2.611 C36  P7U 23 
P7U C37  C24 C  0 1 N N N N N N 8.724  -21.268 -4.431  -5.628 -1.906 -2.797 C37  P7U 24 
P7U C39  C25 C  0 1 N N N N N N 9.374  -24.049 -5.670  -2.461 -0.339 -1.423 C39  P7U 25 
P7U C41  C26 C  0 1 Y N N N N N 8.212  -21.506 -9.655  0.674  2.084  -0.120 C41  P7U 26 
P7U C43  C27 C  0 1 N N N N N N 10.029 -20.750 -11.009 1.862  4.135  0.001  C43  P7U 27 
P7U C44  C28 C  0 1 N N N N N N 10.218 -19.950 -12.354 1.601  5.633  0.176  C44  P7U 28 
P7U C46  C29 C  0 1 N N N N N N 8.546  -20.009 -13.979 2.803  7.383  -0.940 C46  P7U 29 
P7U C47  C30 C  0 1 N N N N N N 9.002  -18.591 -13.676 1.765  6.807  -1.935 C47  P7U 30 
P7U C48  C31 C  0 1 N N N N N N 9.640  -18.761 -12.298 0.726  6.174  -0.972 C48  P7U 31 
P7U C49  C32 C  0 1 N N N N N N 10.801 -21.572 -14.138 3.011  7.093  1.452  C49  P7U 32 
P7U C50  C33 C  0 1 N N N N N N 12.204 -21.057 -13.294 1.549  7.240  1.990  C50  P7U 33 
P7U C51  C34 C  0 1 N N N N N N 11.817 -19.808 -12.635 0.898  5.913  1.520  C51  P7U 34 
P7U C53  C35 C  0 1 Y N N N N N 1.896  -23.032 -7.474  4.988  -3.340 0.171  C53  P7U 35 
P7U F13  F1  F  0 1 N N N N N N 4.167  -22.066 -9.459  4.335  0.213  -0.594 F13  P7U 36 
P7U N17  N1  N  0 1 Y N N N N N 5.246  -24.522 -6.956  2.024  -2.551 -0.701 N17  P7U 37 
P7U N19  N2  N  0 1 N N N N N N 9.521  -23.800 -7.158  -1.663 -0.623 -0.222 N19  P7U 38 
P7U N22  N3  N  0 1 N N N N N N 11.741 -23.631 -5.453  -4.403 -1.130 -0.180 N22  P7U 39 
P7U N38  N4  N  0 1 N N N N N N 7.683  -20.835 -4.020  -6.422 -2.705 -2.941 N38  P7U 40 
P7U N40  N5  N  0 1 Y N N N N N 9.040  -22.200 -8.863  -0.462 1.397  -0.105 N40  P7U 41 
P7U N45  N6  N  0 1 N N N N N N 9.599  -20.733 -13.576 2.869  6.393  0.157  N45  P7U 42 
P7U N52  N7  N  0 1 Y N N N N N 6.866  -21.697 -9.569  1.854  1.512  -0.264 N52  P7U 43 
P7U O25  O1  O  0 1 N N N N N N 14.291 -25.330 -6.365  -6.231 -2.122 1.833  O25  P7U 44 
P7U O34  O2  O  0 1 N N N N N N 12.695 -24.347 -3.428  -6.320 -0.664 -1.195 O34  P7U 45 
P7U O42  O3  O  0 1 N N N N N N 8.697  -20.531 -10.593 0.620  3.429  0.023  O42  P7U 46 
P7U CL01 CL1 CL 0 0 N N N N N N 3.726  -21.358 -6.119  2.822  -2.614 1.659  CL01 P7U 47 
P7U O1   O4  O  0 1 N Y N N N N 14.911 -25.465 -4.103  -6.028 0.199  1.957  O1   P7U 48 
P7U O2   O5  O  0 1 N Y N N N N 15.855 -23.271 -4.054  -8.410 -1.803 0.023  O2   P7U 49 
P7U H1   H1  H  0 1 N N N N N N 7.202  -24.902 -6.372  -0.045 -2.582 -0.548 H1   P7U 50 
P7U H2   H2  H  0 1 N N N N N N 1.265  -20.068 -5.862  4.371  -4.257 3.357  H2   P7U 51 
P7U H3   H3  H  0 1 N N N N N N -1.045 -20.646 -6.536  6.503  -5.433 3.029  H3   P7U 52 
P7U H4   H4  H  0 1 N N N N N N -1.481 -22.696 -7.788  7.689  -5.299 0.906  H4   P7U 53 
P7U H5   H5  H  0 1 N N N N N N -0.744 -24.733 -8.791  7.814  -4.436 -1.408 H5   P7U 54 
P7U H6   H6  H  0 1 N N N N N N 1.033  -26.301 -9.477  6.855  -3.109 -3.207 H6   P7U 55 
P7U H7   H7  H  0 1 N N N N N N 3.376  -25.774 -8.860  4.729  -1.919 -2.904 H7   P7U 56 
P7U H8   H8  H  0 1 N N N N N N 10.990 -24.098 -8.715  -2.757 0.700  0.990  H8   P7U 57 
P7U H9   H9  H  0 1 N N N N N N 11.002 -25.351 -7.428  -1.789 -0.506 1.872  H9   P7U 58 
P7U H10  H10 H  0 1 N N N N N N 12.908 -23.784 -7.139  -3.309 -2.297 1.188  H10  P7U 59 
P7U H11  H11 H  0 1 N N N N N N 11.766 -22.398 -7.098  -4.270 -0.983 1.915  H11  P7U 60 
P7U H12  H12 H  0 1 N N N N N N 14.132 -22.676 -4.816  -8.167 0.213  0.401  H12  P7U 61 
P7U H13  H13 H  0 1 N N N N N N 15.760 -21.591 -6.308  -8.407 -0.010 2.859  H13  P7U 62 
P7U H14  H14 H  0 1 N N N N N N 15.958 -23.169 -7.143  -9.807 -0.713 2.014  H14  P7U 63 
P7U H15  H15 H  0 1 N N N N N N 14.347 -22.376 -7.091  -8.547 -1.776 2.685  H15  P7U 64 
P7U H16  H16 H  0 1 N N N N N N 10.411 -23.583 -3.837  -3.352 -2.298 -1.583 H16  P7U 65 
P7U H17  H17 H  0 1 N N N N N N 10.899 -21.227 -4.401  -5.078 0.082  -2.385 H17  P7U 66 
P7U H18  H18 H  0 1 N N N N N N 10.184 -21.468 -6.031  -4.011 -0.773 -3.524 H18  P7U 67 
P7U H19  H19 H  0 1 N N N N N N 9.483  -25.125 -5.469  -1.853 -0.507 -2.312 H19  P7U 68 
P7U H20  H20 H  0 1 N N N N N N 8.379  -23.714 -5.342  -2.794 0.699  -1.401 H20  P7U 69 
P7U H21  H21 H  0 1 N N N N N N 10.202 -21.823 -11.178 2.362  3.962  -0.952 H21  P7U 70 
P7U H22  H22 H  0 1 N N N N N N 10.730 -20.381 -10.246 2.496  3.780  0.813  H22  P7U 71 
P7U H23  H23 H  0 1 N N N N N N 7.641  -20.268 -13.409 3.776  7.481  -1.421 H23  P7U 72 
P7U H24  H24 H  0 1 N N N N N N 8.355  -20.146 -15.053 2.468  8.348  -0.559 H24  P7U 73 
P7U H25  H25 H  0 1 N N N N N N 9.735  -18.238 -14.417 1.313  7.600  -2.530 H25  P7U 74 
P7U H26  H26 H  0 1 N N N N N N 8.151  -17.895 -13.641 2.217  6.049  -2.575 H26  P7U 75 
P7U H27  H27 H  0 1 N N N N N N 8.875  -18.736 -11.508 0.190  5.363  -1.464 H27  P7U 76 
P7U H28  H28 H  0 1 N N N N N N 10.385 -17.973 -12.113 0.032  6.929  -0.604 H28  P7U 77 
P7U H29  H29 H  0 1 N N N N N N 10.628 -22.644 -13.965 3.483  8.065  1.309  H29  P7U 78 
P7U H30  H30 H  0 1 N N N N N N 10.919 -21.389 -15.216 3.592  6.488  2.148  H30  P7U 79 
P7U H32  H32 H  0 1 N N N N N N 13.034 -20.883 -13.995 1.540  7.340  3.075  H32  P7U 80 
P7U H33  H33 H  0 1 N N N N N N 12.505 -21.809 -12.550 1.043  8.082  1.518  H33  P7U 81 
P7U H35  H35 H  0 1 N N N N N N 12.018 -18.948 -13.290 -0.174 6.041  1.374  H35  P7U 82 
P7U H36  H36 H  0 1 N N N N N N 12.365 -19.685 -11.689 1.098  5.113  2.233  H36  P7U 83 
P7U H38  H38 H  0 1 N N N N N N 15.185 -25.535 -6.614  -6.438 -2.910 1.311  H38  P7U 84 
P7U H39  H39 H  0 1 N N N N N N 14.370 -25.440 -3.322  -6.163 1.068  1.554  H39  P7U 85 
P7U H40  H40 H  0 1 N N N N N N 16.302 -22.433 -4.031  -8.343 -2.683 0.418  H40  P7U 86 
# 
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 
P7U C10 C11  SING N N 1  
P7U C10 C09  DOUB Y N 2  
P7U C10 C53  SING Y N 3  
P7U C14 C15  DOUB Y N 4  
P7U C14 C12  SING Y N 5  
P7U C14 N52  SING Y N 6  
P7U C15 C16  SING Y N 7  
P7U C15 C18  SING Y N 8  
P7U C16 N17  DOUB Y N 9  
P7U C11 C12  DOUB Y N 10 
P7U C11 N17  SING Y N 11 
P7U C12 F13  SING N N 12 
P7U C02 C03  DOUB Y N 13 
P7U C02 C53  SING Y N 14 
P7U C02 CL01 SING N N 15 
P7U C03 C04  SING Y N 16 
P7U C04 C05  DOUB Y N 17 
P7U C05 C06  SING Y N 18 
P7U C06 C07  SING Y N 19 
P7U C06 C53  DOUB Y N 20 
P7U C07 C08  DOUB Y N 21 
P7U C08 C09  SING Y N 22 
P7U C18 N19  SING N N 23 
P7U C18 N40  DOUB Y N 24 
P7U C20 C21  SING N N 25 
P7U C20 N19  SING N N 26 
P7U C21 N22  SING N N 27 
P7U C23 C24  SING N N 28 
P7U C23 N22  SING N N 29 
P7U C23 O34  DOUB N N 30 
P7U C24 C32  SING N N 31 
P7U C24 O25  SING N N 32 
P7U C32 C33  SING N N 33 
P7U C35 C36  SING N N 34 
P7U C35 C39  SING N N 35 
P7U C35 N22  SING N N 36 
P7U C36 C37  SING N N 37 
P7U C37 N38  TRIP N N 38 
P7U C39 N19  SING N N 39 
P7U C41 N40  SING Y N 40 
P7U C41 N52  DOUB Y N 41 
P7U C41 O42  SING N N 42 
P7U C43 C44  SING N N 43 
P7U C43 O42  SING N N 44 
P7U C44 C48  SING N N 45 
P7U C44 C51  SING N N 46 
P7U C44 N45  SING N N 47 
P7U C46 C47  SING N N 48 
P7U C46 N45  SING N N 49 
P7U C47 C48  SING N N 50 
P7U C49 N45  SING N N 51 
P7U C50 C51  SING N N 52 
P7U C24 O1   SING N N 53 
P7U C32 O2   SING N N 54 
P7U C16 H1   SING N N 55 
P7U C03 H2   SING N N 56 
P7U C04 H3   SING N N 57 
P7U C05 H4   SING N N 58 
P7U C07 H5   SING N N 59 
P7U C08 H6   SING N N 60 
P7U C09 H7   SING N N 61 
P7U C20 H8   SING N N 62 
P7U C20 H9   SING N N 63 
P7U C21 H10  SING N N 64 
P7U C21 H11  SING N N 65 
P7U C32 H12  SING N N 66 
P7U C33 H13  SING N N 67 
P7U C33 H14  SING N N 68 
P7U C33 H15  SING N N 69 
P7U C35 H16  SING N N 70 
P7U C36 H17  SING N N 71 
P7U C36 H18  SING N N 72 
P7U C39 H19  SING N N 73 
P7U C39 H20  SING N N 74 
P7U C43 H21  SING N N 75 
P7U C43 H22  SING N N 76 
P7U C46 H23  SING N N 77 
P7U C46 H24  SING N N 78 
P7U C47 H25  SING N N 79 
P7U C47 H26  SING N N 80 
P7U C48 H27  SING N N 81 
P7U C48 H28  SING N N 82 
P7U C49 H29  SING N N 83 
P7U C49 H30  SING N N 84 
P7U C50 H32  SING N N 85 
P7U C50 H33  SING N N 86 
P7U C51 H35  SING N N 87 
P7U C51 H36  SING N N 88 
P7U O25 H38  SING N N 89 
P7U O1  H39  SING N N 90 
P7U O2  H40  SING N N 91 
P7U C49 C50  SING N N 92 
# 
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 
P7U SMILES           ACDLabs              12.01 "CC(O)C(O)(O)C(=O)N1CCN(CC1CC#N)c1nc(nc2c(F)c(ncc21)c1cccc2cccc(Cl)c21)OCC12CCCN2CCC1"                                                                                                                                                                          
P7U InChI            InChI                1.06  "InChI=1S/C35H37ClFN7O5/c1-21(45)35(47,48)32(46)44-17-16-42(19-23(44)10-13-38)31-25-18-39-29(24-8-2-6-22-7-3-9-26(36)27(22)24)28(37)30(25)40-33(41-31)49-20-34-11-4-14-43(34)15-5-12-34/h2-3,6-9,18,21,23,45,47-48H,4-5,10-12,14-17,19-20H2,1H3/t21-,23-/m0/s1" 
P7U InChIKey         InChI                1.06  ODVFPOIDMRCQHU-GMAHTHKFSA-N                                                                                                                                                                                                                                     
P7U SMILES_CANONICAL CACTVS               3.385 "C[C@H](O)C(O)(O)C(=O)N1CCN(C[C@@H]1CC#N)c2nc(OCC34CCCN3CCC4)nc5c(F)c(ncc25)c6cccc7cccc(Cl)c67"                                                                                                                                                                 
P7U SMILES           CACTVS               3.385 "C[CH](O)C(O)(O)C(=O)N1CCN(C[CH]1CC#N)c2nc(OCC34CCCN3CCC4)nc5c(F)c(ncc25)c6cccc7cccc(Cl)c67"                                                                                                                                                                    
P7U SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H](C(C(=O)N1CCN(C[C@@H]1CC#N)c2c3cnc(c(c3nc(n2)OCC45CCCN4CCC5)F)c6cccc7c6c(ccc7)Cl)(O)O)O"                                                                                                                                                                
P7U SMILES           "OpenEye OEToolkits" 2.0.7 "CC(C(C(=O)N1CCN(CC1CC#N)c2c3cnc(c(c3nc(n2)OCC45CCCN4CCC5)F)c6cccc7c6c(ccc7)Cl)(O)O)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 
P7U "SYSTEMATIC NAME" ACDLabs              12.01 "{(2S)-4-[(7P)-7-(8-chloronaphthalen-1-yl)-8-fluoro-2-{[(4R,7as)-tetrahydro-1H-pyrrolizin-7a(5H)-yl]methoxy}pyrido[4,3-d]pyrimidin-4-yl]-1-[(3S)-2,2,3-trihydroxybutanoyl]piperazin-2-yl}acetonitrile"      
P7U "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "2-[(2~{S})-4-[7-(8-chloranylnaphthalen-1-yl)-8-fluoranyl-2-(1,2,3,5,6,7-hexahydropyrrolizin-8-ylmethoxy)pyrido[4,3-d]pyrimidin-4-yl]-1-[(3~{S})-2,2,3-tris(oxidanyl)butanoyl]piperazin-2-yl]ethanenitrile" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
P7U "Create component" 2022-05-25 RCSB 
P7U "Modify formula"   2022-08-15 RCSB 
P7U "Initial release"  2022-08-31 RCSB 
P7U "Modify PCM"       2024-09-27 PDBE 
# 
loop_
_pdbx_chem_comp_pcm.pcm_id 
_pdbx_chem_comp_pcm.comp_id 
_pdbx_chem_comp_pcm.modified_residue_id 
_pdbx_chem_comp_pcm.type 
_pdbx_chem_comp_pcm.category 
_pdbx_chem_comp_pcm.position 
_pdbx_chem_comp_pcm.polypeptide_position 
_pdbx_chem_comp_pcm.comp_id_linking_atom 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession 
1 P7U ARG None "Covalent chemical modification" "Amino-acid side chain" "Any position" C24 NH1 ? ? 
2 P7U ARG None "Covalent chemical modification" "Amino-acid side chain" "Any position" C32 NE  ? ? 
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