data_A9C
# 
_chem_comp.id                                    A9C 
_chem_comp.name                                  "N-{[3-({[(1S,2R)-2-{[(2E)-2-cyano-4,4-dimethylpent-2-enoyl]amino}cyclopentyl]oxy}methyl)phenyl]methyl}-4-[(4-methylpiperazin-1-yl)methyl]benzamide" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C34 H45 N5 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2018-10-24 
_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                        571.753 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     A9C 
_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        6IJR 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBJ 
_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 
A9C CAV C1  C 0 1 N N N N N N -11.754 -25.647 8.097  6.760  -0.561 0.103  CAV A9C 1  
A9C CAT C2  C 0 1 N N N N N N -12.388 -26.416 9.260  7.652  -1.055 1.244  CAT A9C 2  
A9C NBN N1  N 0 1 N N N N N N -13.570 -25.781 9.837  8.537  0.036  1.679  NBN A9C 3  
A9C CAA C3  C 0 1 N N N N N N -13.395 -24.446 10.424 9.465  0.419  0.607  CAA A9C 4  
A9C CAU C4  C 0 1 N N N N N N -14.517 -25.653 8.682  7.755  1.192  2.137  CAU A9C 5  
A9C CAW C5  C 0 1 N N N N N N -13.944 -24.970 7.425  6.863  1.687  0.996  CAW A9C 6  
A9C NBO N2  N 0 1 N N N N N N -12.710 -25.638 6.975  5.979  0.596  0.562  NBO A9C 7  
A9C CAZ C6  C 0 1 N N N N N N -12.137 -24.977 5.770  5.053  1.054  -0.483 CAZ A9C 8  
A9C CBH C7  C 0 1 Y N N N N N -11.141 -25.916 5.117  4.009  -0.005 -0.729 CBH A9C 9  
A9C CAM C8  C 0 1 Y N N N N N -9.757  -25.759 5.279  2.832  0.007  -0.003 CAM A9C 10 
A9C CAO C9  C 0 1 Y N N N N N -8.878  -26.665 4.683  1.872  -0.959 -0.223 CAO A9C 11 
A9C CAL C10 C 0 1 Y N N N N N -11.627 -26.985 4.368  4.231  -0.982 -1.683 CAL A9C 12 
A9C CAN C11 C 0 1 Y N N N N N -10.741 -27.888 3.787  3.277  -1.951 -1.917 CAN A9C 13 
A9C CBJ C12 C 0 1 Y N N N N N -9.371  -27.723 3.913  2.091  -1.951 -1.180 CBJ A9C 14 
A9C CBE C13 C 0 1 N N N N N N -8.460  -28.740 3.303  1.065  -2.986 -1.425 CBE A9C 15 
A9C OAF O1  O 0 1 N N N N N N -7.420  -28.961 3.900  1.252  -3.840 -2.270 OAF A9C 16 
A9C NBB N3  N 0 1 N N N N N N -8.792  -29.439 2.215  -0.079 -2.983 -0.713 NBB A9C 17 
A9C CAX C14 C 0 1 N N N N N N -7.934  -30.463 1.648  -1.096 -4.009 -0.955 CAX A9C 18 
A9C CBG C15 C 0 1 Y N N N N N -7.089  -29.928 0.525  -2.268 -3.783 -0.035 CBG A9C 19 
A9C CAP C16 C 0 1 Y N N N N N -7.676  -29.155 -0.484 -3.317 -2.977 -0.437 CAP A9C 20 
A9C CAJ C17 C 0 1 Y N N N N N -5.726  -30.237 0.493  -2.297 -4.385 1.209  CAJ A9C 21 
A9C CAI C18 C 0 1 Y N N N N N -4.947  -29.759 -0.557 -3.372 -4.178 2.053  CAI A9C 22 
A9C CAK C19 C 0 1 Y N N N N N -5.526  -28.980 -1.565 -4.418 -3.368 1.653  CAK A9C 23 
A9C CBI C20 C 0 1 Y N N N N N -6.887  -28.680 -1.530 -4.391 -2.769 0.407  CBI A9C 24 
A9C CAY C21 C 0 1 N N N N N N -7.490  -27.832 -2.625 -5.532 -1.885 -0.028 CAY A9C 25 
A9C OBD O2  O 0 1 N N N N N N -8.731  -28.365 -3.124 -5.266 -0.537 0.362  OBD A9C 26 
A9C CBM C22 C 0 1 N N S N N N -9.375  -27.485 -4.051 -6.292 0.388  -0.006 CBM A9C 27 
A9C CAS C23 C 0 1 N N N N N N -8.746  -27.652 -5.434 -7.309 0.534  1.145  CAS A9C 28 
A9C CAQ C24 C 0 1 N N N N N N -9.653  -28.567 -6.245 -7.698 2.033  1.120  CAQ A9C 29 
A9C CAR C25 C 0 1 N N N N N N -10.916 -28.783 -5.423 -6.356 2.728  0.781  CAR A9C 30 
A9C CBL C26 C 0 1 N N R N N N -10.865 -27.715 -4.333 -5.686 1.783  -0.238 CBL A9C 31 
A9C NBC N4  N 0 1 N N N N N N -11.861 -27.977 -3.294 -4.239 1.745  -0.013 NBC A9C 32 
A9C CBF C27 C 0 1 N N N N N N -11.921 -29.011 -2.446 -3.443 2.666  -0.590 CBF A9C 33 
A9C OAG O3  O 0 1 N N N N N N -11.124 -29.926 -2.394 -3.925 3.528  -1.299 OAG A9C 34 
A9C CBK C28 C 0 1 N N N N N N -13.091 -29.111 -1.520 -1.984 2.628  -0.362 CBK A9C 35 
A9C CAH C29 C 0 1 N N N N N N -14.163 -28.194 -1.910 -1.415 1.613  0.472  CAH A9C 36 
A9C NAE N5  N 0 1 N N N N N N -15.042 -27.527 -2.249 -0.965 0.807  1.135  NAE A9C 37 
A9C CBA C30 C 0 1 N N N N N N -12.748 -29.127 -0.015 -1.188 3.548  -0.940 CBA A9C 38 
A9C CBP C31 C 0 1 N N N N N N -13.947 -29.573 0.870  0.280  3.592  -0.603 CBP A9C 39 
A9C CAC C32 C 0 1 N N N N N N -13.419 -29.892 2.289  0.931  4.782  -1.313 CAC A9C 40 
A9C CAD C33 C 0 1 N N N N N N -14.676 -30.834 0.356  0.453  3.745  0.909  CAD A9C 41 
A9C CAB C34 C 0 1 N N N N N N -14.985 -28.447 1.000  0.949  2.296  -1.064 CAB A9C 42 
A9C H1  H1  H 0 1 N N N N N N -10.822 -26.142 7.788  7.381  -0.267 -0.743 H1  A9C 43 
A9C H2  H2  H 0 1 N N N N N N -11.535 -24.615 8.408  6.084  -1.359 -0.202 H2  A9C 44 
A9C H3  H3  H 0 1 N N N N N N -12.678 -27.412 8.895  7.030  -1.374 2.080  H3  A9C 45 
A9C H4  H4  H 0 1 N N N N N N -11.633 -26.521 10.053 8.254  -1.895 0.897  H4  A9C 46 
A9C H6  H6  H 0 1 N N N N N N -12.703 -24.508 11.277 8.899  0.754  -0.262 H6  A9C 47 
A9C H7  H7  H 0 1 N N N N N N -12.983 -23.764 9.666  10.108 1.228  0.955  H7  A9C 48 
A9C H8  H8  H 0 1 N N N N N N -14.368 -24.067 10.769 10.078 -0.440 0.333  H8  A9C 49 
A9C H9  H9  H 0 1 N N N N N N -15.385 -25.068 9.019  7.134  0.899  2.984  H9  A9C 50 
A9C H10 H10 H 0 1 N N N N N N -14.844 -26.664 8.399  8.432  1.991  2.442  H10 A9C 51 
A9C H11 H11 H 0 1 N N N N N N -13.719 -23.919 7.658  6.261  2.527  1.343  H11 A9C 52 
A9C H12 H12 H 0 1 N N N N N N -14.691 -25.015 6.619  7.485  2.006  0.160  H12 A9C 53 
A9C H14 H14 H 0 1 N N N N N N -11.628 -24.048 6.066  4.567  1.975  -0.160 H14 A9C 54 
A9C H15 H15 H 0 1 N N N N N N -12.943 -24.743 5.059  5.607  1.239  -1.404 H15 A9C 55 
A9C H16 H16 H 0 1 N N N N N N -9.371  -24.938 5.865  2.663  0.775  0.738  H16 A9C 56 
A9C H17 H17 H 0 1 N N N N N N -7.813  -26.548 4.817  0.953  -0.949 0.345  H17 A9C 57 
A9C H18 H18 H 0 1 N N N N N N -12.691 -27.113 4.238  5.152  -0.986 -2.247 H18 A9C 58 
A9C H19 H19 H 0 1 N N N N N N -11.127 -28.729 3.230  3.453  -2.715 -2.659 H19 A9C 59 
A9C H20 H20 H 0 1 N N N N N N -9.668  -29.249 1.772  -0.229 -2.301 -0.039 H20 A9C 60 
A9C H21 H21 H 0 1 N N N N N N -8.562  -31.280 1.263  -1.431 -3.951 -1.991 H21 A9C 61 
A9C H22 H22 H 0 1 N N N N N N -7.273  -30.850 2.437  -0.671 -4.995 -0.766 H22 A9C 62 
A9C H23 H23 H 0 1 N N N N N N -8.732  -28.929 -0.452 -3.296 -2.510 -1.411 H23 A9C 63 
A9C H24 H24 H 0 1 N N N N N N -5.283  -30.839 1.273  -1.479 -5.018 1.521  H24 A9C 64 
A9C H25 H25 H 0 1 N N N N N N -3.893  -29.990 -0.594 -3.394 -4.649 3.024  H25 A9C 65 
A9C H26 H26 H 0 1 N N N N N N -4.915  -28.609 -2.375 -5.258 -3.205 2.312  H26 A9C 66 
A9C H27 H27 H 0 1 N N N N N N -6.774  -27.771 -3.457 -5.637 -1.936 -1.112 H27 A9C 67 
A9C H28 H28 H 0 1 N N N N N N -7.675  -26.824 -2.227 -6.455 -2.225 0.442  H28 A9C 68 
A9C H29 H29 H 0 1 N N N N N N -9.239  -26.442 -3.730 -6.797 0.045  -0.909 H29 A9C 69 
A9C H30 H30 H 0 1 N N N N N N -7.747  -28.102 -5.340 -8.184 -0.090 0.962  H30 A9C 70 
A9C H31 H31 H 0 1 N N N N N N -8.662  -26.673 -5.928 -6.848 0.273  2.097  H31 A9C 71 
A9C H32 H32 H 0 1 N N N N N N -9.904  -28.095 -7.206 -8.440 2.227  0.345  H32 A9C 72 
A9C H33 H33 H 0 1 N N N N N N -9.152  -29.529 -6.429 -8.064 2.353  2.095  H33 A9C 73 
A9C H34 H34 H 0 1 N N N N N N -11.811 -28.654 -6.049 -6.536 3.706  0.333  H34 A9C 74 
A9C H35 H35 H 0 1 N N N N N N -10.921 -29.789 -4.979 -5.740 2.825  1.675  H35 A9C 75 
A9C H36 H36 H 0 1 N N N N N N -11.199 -26.793 -4.830 -5.897 2.118  -1.254 H36 A9C 76 
A9C H37 H37 H 0 1 N N N N N N -12.589 -27.297 -3.206 -3.854 1.057  0.553  H37 A9C 77 
A9C H39 H39 H 0 1 N N N N N N -11.780 -28.858 0.381  -1.602 4.255  -1.644 H39 A9C 78 
A9C H41 H41 H 0 1 N N N N N N -14.255 -30.210 2.929  0.455  5.706  -0.984 H41 A9C 79 
A9C H42 H42 H 0 1 N N N N N N -12.675 -30.700 2.230  1.993  4.813  -1.069 H42 A9C 80 
A9C H43 H43 H 0 1 N N N N N N -12.951 -28.993 2.717  0.808  4.673  -2.391 H43 A9C 81 
A9C H44 H44 H 0 1 N N N N N N -15.506 -31.081 1.035  -0.011 2.898  1.415  H44 A9C 82 
A9C H45 H45 H 0 1 N N N N N N -15.072 -30.643 -0.653 1.515  3.777  1.153  H45 A9C 83 
A9C H46 H46 H 0 1 N N N N N N -13.970 -31.676 0.320  -0.023 4.669  1.238  H46 A9C 84 
A9C H47 H47 H 0 1 N N N N N N -15.820 -28.788 1.629  0.901  2.229  -2.151 H47 A9C 85 
A9C H48 H48 H 0 1 N N N N N N -14.515 -27.566 1.461  1.991  2.290  -0.745 H48 A9C 86 
A9C H49 H49 H 0 1 N N N N N N -15.363 -28.180 0.002  0.430  1.444  -0.625 H49 A9C 87 
# 
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 
A9C CAQ CAS SING N N 1  
A9C CAQ CAR SING N N 2  
A9C CAS CBM SING N N 3  
A9C CAR CBL SING N N 4  
A9C CBL CBM SING N N 5  
A9C CBL NBC SING N N 6  
A9C CBM OBD SING N N 7  
A9C NBC CBF SING N N 8  
A9C OBD CAY SING N N 9  
A9C CAY CBI SING N N 10 
A9C CBF OAG DOUB N N 11 
A9C CBF CBK SING N N 12 
A9C NAE CAH TRIP N N 13 
A9C CAH CBK SING N N 14 
A9C CAK CBI DOUB Y N 15 
A9C CAK CAI SING Y N 16 
A9C CBI CAP SING Y N 17 
A9C CBK CBA DOUB N E 18 
A9C CAI CAJ DOUB Y N 19 
A9C CAP CBG DOUB Y N 20 
A9C CBA CBP SING N N 21 
A9C CAD CBP SING N N 22 
A9C CAJ CBG SING Y N 23 
A9C CBG CAX SING N N 24 
A9C CBP CAB SING N N 25 
A9C CBP CAC SING N N 26 
A9C CAX NBB SING N N 27 
A9C NBB CBE SING N N 28 
A9C CBE OAF DOUB N N 29 
A9C CBE CBJ SING N N 30 
A9C CAN CBJ DOUB Y N 31 
A9C CAN CAL SING Y N 32 
A9C CBJ CAO SING Y N 33 
A9C CAL CBH DOUB Y N 34 
A9C CAO CAM DOUB Y N 35 
A9C CBH CAM SING Y N 36 
A9C CBH CAZ SING N N 37 
A9C CAZ NBO SING N N 38 
A9C NBO CAW SING N N 39 
A9C NBO CAV SING N N 40 
A9C CAW CAU SING N N 41 
A9C CAV CAT SING N N 42 
A9C CAU NBN SING N N 43 
A9C CAT NBN SING N N 44 
A9C NBN CAA SING N N 45 
A9C CAV H1  SING N N 46 
A9C CAV H2  SING N N 47 
A9C CAT H3  SING N N 48 
A9C CAT H4  SING N N 49 
A9C CAA H6  SING N N 50 
A9C CAA H7  SING N N 51 
A9C CAA H8  SING N N 52 
A9C CAU H9  SING N N 53 
A9C CAU H10 SING N N 54 
A9C CAW H11 SING N N 55 
A9C CAW H12 SING N N 56 
A9C CAZ H14 SING N N 57 
A9C CAZ H15 SING N N 58 
A9C CAM H16 SING N N 59 
A9C CAO H17 SING N N 60 
A9C CAL H18 SING N N 61 
A9C CAN H19 SING N N 62 
A9C NBB H20 SING N N 63 
A9C CAX H21 SING N N 64 
A9C CAX H22 SING N N 65 
A9C CAP H23 SING N N 66 
A9C CAJ H24 SING N N 67 
A9C CAI H25 SING N N 68 
A9C CAK H26 SING N N 69 
A9C CAY H27 SING N N 70 
A9C CAY H28 SING N N 71 
A9C CBM H29 SING N N 72 
A9C CAS H30 SING N N 73 
A9C CAS H31 SING N N 74 
A9C CAQ H32 SING N N 75 
A9C CAQ H33 SING N N 76 
A9C CAR H34 SING N N 77 
A9C CAR H35 SING N N 78 
A9C CBL H36 SING N N 79 
A9C NBC H37 SING N N 80 
A9C CBA H39 SING N N 81 
A9C CAC H41 SING N N 82 
A9C CAC H42 SING N N 83 
A9C CAC H43 SING N N 84 
A9C CAD H44 SING N N 85 
A9C CAD H45 SING N N 86 
A9C CAD H46 SING N N 87 
A9C CAB H47 SING N N 88 
A9C CAB H48 SING N N 89 
A9C CAB H49 SING N N 90 
# 
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 
A9C SMILES           ACDLabs              12.01 "C1CN(C)CCN1Cc2ccc(cc2)C(=O)NCc3cc(ccc3)COC4CCCC4NC(=O)\C(=C\C(C)(C)C)C#N"                                                                                                                                                                     
A9C InChI            InChI                1.03  "InChI=1S/C34H45N5O3/c1-34(2,3)20-29(21-35)33(41)37-30-9-6-10-31(30)42-24-27-8-5-7-26(19-27)22-36-32(40)28-13-11-25(12-14-28)23-39-17-15-38(4)16-18-39/h5,7-8,11-14,19-20,30-31H,6,9-10,15-18,22-24H2,1-4H3,(H,36,40)(H,37,41)/t30-,31+/m1/s1" 
A9C InChIKey         InChI                1.03  BUZJOXNDWIIWSG-JSOSNVBQSA-N                                                                                                                                                                                                                    
A9C SMILES_CANONICAL CACTVS               3.385 "CN1CCN(CC1)Cc2ccc(cc2)C(=O)NCc3cccc(CO[C@H]4CCC[C@H]4NC(=O)\C(=C\C(C)(C)C)C#N)c3"                                                                                                                                                             
A9C SMILES           CACTVS               3.385 "CN1CCN(CC1)Cc2ccc(cc2)C(=O)NCc3cccc(CO[CH]4CCC[CH]4NC(=O)C(=CC(C)(C)C)C#N)c3"                                                                                                                                                                 
A9C SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "CC(C)(C)/C=C(\C#N)/C(=O)N[C@@H]1CCC[C@@H]1OCc2cccc(c2)CNC(=O)c3ccc(cc3)CN4CCN(CC4)C"                                                                                                                                                          
A9C SMILES           "OpenEye OEToolkits" 2.0.6 "CC(C)(C)C=C(C#N)C(=O)NC1CCCC1OCc2cccc(c2)CNC(=O)c3ccc(cc3)CN4CCN(CC4)C"                                                                                                                                                                       
# 
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 
A9C "SYSTEMATIC NAME" ACDLabs              12.01 "N-{[3-({[(1S,2R)-2-{[(2E)-2-cyano-4,4-dimethylpent-2-enoyl]amino}cyclopentyl]oxy}methyl)phenyl]methyl}-4-[(4-methylpiperazin-1-yl)methyl]benzamide"           
A9C "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "~{N}-[[3-[[(1~{S},2~{R})-2-[[(~{E})-2-cyano-4,4-dimethyl-pent-2-enoyl]amino]cyclopentyl]oxymethyl]phenyl]methyl]-4-[(4-methylpiperazin-1-yl)methyl]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 
A9C "Create component" 2018-10-24 PDBJ 
A9C "Initial release"  2019-10-16 RCSB 
A9C "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            A9C 
_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               CBA 
_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      ? 
# 
