data_Y56
# 
_chem_comp.id                                    Y56 
_chem_comp.name                                  "4-(dimethylamino)-N-{4-[(3S)-3-({4-[(8R)-2-phenylpyrazolo[1,5-a]pyridin-3-yl]pyrimidin-2-yl}amino)pyrrolidine-1-carbonyl]phenyl}butanamide" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C34 H36 N8 O2" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2021-10-12 
_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                        588.702 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     Y56 
_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        7SHR 
_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 
Y56 C01 C1  C 0 1 N N N N N N 19.560 21.438 2.690  11.535  3.063  -1.380 C01 Y56 1  
Y56 C03 C2  C 0 1 N N N N N N 19.470 22.264 4.962  11.509  1.275  0.253  C03 Y56 2  
Y56 C04 C3  C 0 1 N N N N N N 20.911 22.844 4.834  9.998   1.065  0.130  C04 Y56 3  
Y56 C05 C4  C 0 1 N N N N N N 21.498 23.333 6.195  9.666   -0.407 0.383  C05 Y56 4  
Y56 C06 C5  C 0 1 N N N N N N 21.613 24.907 6.220  8.178   -0.613 0.262  C06 Y56 5  
Y56 C08 C6  C 0 1 Y N N N N N 21.485 25.346 8.833  6.267   -2.013 0.436  C08 Y56 6  
Y56 C09 C7  C 0 1 Y N N N N N 21.891 26.184 9.850  5.479   -1.254 -0.423 C09 Y56 7  
Y56 C10 C8  C 0 1 Y N N N N N 21.783 25.802 11.228 4.113   -1.427 -0.440 C10 Y56 8  
Y56 C11 C9  C 0 1 Y N N N N N 21.250 24.536 11.519 3.519   -2.365 0.408  C11 Y56 9  
Y56 C12 C10 C 0 1 N N N N N N 21.051 23.902 12.896 2.055   -2.553 0.393  C12 Y56 10 
Y56 C14 C11 C 0 1 N N N N N N 23.162 24.976 14.316 1.694   -0.228 -0.485 C14 Y56 11 
Y56 C15 C12 C 0 1 N N N N N N 23.297 25.066 15.654 0.438   0.665  -0.329 C15 Y56 12 
Y56 C16 C13 C 0 1 N N S N N N 21.961 24.365 16.297 -0.689  -0.302 -0.776 C16 Y56 13 
Y56 C18 C14 C 0 1 Y N N N N N 21.022 23.221 18.424 -3.157  -0.284 -0.766 C18 Y56 14 
Y56 C20 C15 C 0 1 Y N N N N N 20.198 21.967 20.226 -4.244  -1.310 -2.523 C20 Y56 15 
Y56 C21 C16 C 0 1 Y N N N N N 18.910 22.136 19.708 -5.460  -0.975 -1.962 C21 Y56 16 
Y56 C22 C17 C 0 1 Y N N N N N 18.721 22.896 18.518 -5.465  -0.275 -0.748 C22 Y56 17 
Y56 C23 C18 C 0 1 Y N N N N N 17.326 23.077 17.897 -6.738  0.106  -0.107 C23 Y56 18 
Y56 C24 C19 C 0 1 Y N N N N N 16.998 23.335 16.497 -7.843  -0.729 0.115  C24 Y56 19 
Y56 C25 C20 C 0 1 Y N N N N N 17.856 23.528 15.359 -8.087  -2.081 -0.170 C25 Y56 20 
Y56 C26 C21 C 0 1 Y N N N N N 17.269 23.776 14.117 -9.287  -2.629 0.174  C26 Y56 21 
Y56 C27 C22 C 0 1 Y N N N N N 15.862 23.823 14.027 -10.253 -1.832 0.806  C27 Y56 22 
Y56 C28 C23 C 0 1 Y N N N N N 15.080 23.623 15.192 -10.000 -0.532 1.072  C28 Y56 23 
Y56 C31 C24 C 0 1 Y N N N N N 16.027 22.960 18.542 -7.072  1.377  0.404  C31 Y56 24 
Y56 C32 C25 C 0 1 Y N N N N N 15.701 22.726 19.993 -6.197  2.574  0.390  C32 Y56 25 
Y56 C33 C26 C 0 1 Y N N N N N 16.318 23.564 20.962 -5.433  2.868  -0.738 C33 Y56 26 
Y56 C34 C27 C 0 1 Y N N N N N 16.029 23.392 22.313 -4.621  3.984  -0.746 C34 Y56 27 
Y56 C35 C28 C 0 1 Y N N N N N 15.095 22.432 22.705 -4.564  4.809  0.363  C35 Y56 28 
Y56 C36 C29 C 0 1 Y N N N N N 14.449 21.621 21.723 -5.319  4.521  1.485  C36 Y56 29 
Y56 C37 C30 C 0 1 Y N N N N N 14.762 21.773 20.375 -6.140  3.411  1.502  C37 Y56 30 
Y56 C39 C31 C 0 1 N N N N N N 21.714 23.392 15.474 -0.202  -1.668 -0.249 C39 Y56 31 
Y56 C41 C32 C 0 1 Y N N N N N 20.833 23.727 10.485 4.313   -3.126 1.270  C41 Y56 32 
Y56 C42 C33 C 0 1 Y N N N N N 20.938 24.086 9.147  5.679   -2.949 1.281  C42 Y56 33 
Y56 C44 C34 C 0 1 N N N N N N 17.483 21.786 3.857  13.228  2.977  0.349  C44 Y56 34 
Y56 N02 N1  N 0 1 N N N N N N 18.805 22.299 3.674  11.828  2.688  0.010  N02 Y56 35 
Y56 N07 N2  N 0 1 N N N N N N 21.596 25.769 7.444  7.651   -1.840 0.446  N07 Y56 36 
Y56 N13 N3  N 0 1 N N N N N N 21.931 24.090 14.078 1.254   -1.573 -0.071 N13 Y56 37 
Y56 N17 N4  N 0 1 N N N N N N 22.190 23.820 17.688 -1.965  0.067  -0.157 N17 Y56 38 
Y56 N19 N5  N 0 1 Y N N N N N 21.238 22.519 19.564 -3.125  -0.954 -1.908 N19 Y56 39 
Y56 N29 N6  N 0 1 Y N N N N N 15.682 23.386 16.378 -8.802  0.027  0.733  N29 Y56 40 
Y56 N30 N7  N 0 1 Y N N N N N 15.115 23.156 17.612 -8.294  1.322  0.896  N30 Y56 41 
Y56 N38 N8  N 0 1 Y N N N N N 19.803 23.394 17.921 -4.299  0.054  -0.189 N38 Y56 42 
Y56 O40 O1  O 0 1 N N N N N N 20.139 23.126 12.986 1.571   -3.592 0.799  O40 Y56 43 
Y56 O43 O2  O 0 1 N N N N N N 21.720 25.466 5.189  7.455   0.324  -0.001 O43 Y56 44 
Y56 H1  H1  H 0 1 N N N N N N 20.575 21.839 2.555  12.182  2.499  -2.052 H1  Y56 45 
Y56 H2  H2  H 0 1 N N N N N N 19.620 20.409 3.074  10.493  2.838  -1.605 H2  Y56 46 
Y56 H3  H3  H 0 1 N N N N N N 19.034 21.438 1.724  11.714  4.129  -1.514 H3  Y56 47 
Y56 H4  H4  H 0 1 N N N N N N 18.898 22.866 5.684  11.834  0.996  1.255  H4  Y56 48 
Y56 H5  H5  H 0 1 N N N N N N 19.526 21.224 5.315  12.023  0.655  -0.482 H5  Y56 49 
Y56 H6  H6  H 0 1 N N N N N N 21.569 22.060 4.430  9.484   1.685  0.865  H6  Y56 50 
Y56 H7  H7  H 0 1 N N N N N N 20.885 23.695 4.138  9.673   1.344  -0.872 H7  Y56 51 
Y56 H8  H8  H 0 1 N N N N N N 20.837 23.006 7.011  10.180  -1.027 -0.352 H8  Y56 52 
Y56 H9  H9  H 0 1 N N N N N N 22.498 22.896 6.335  9.991   -0.686 1.385  H9  Y56 53 
Y56 H10 H10 H 0 1 N N N N N N 22.301 27.152 9.603  5.939   -0.529 -1.078 H10 Y56 54 
Y56 H11 H11 H 0 1 N N N N N N 22.102 26.467 12.017 3.502   -0.837 -1.106 H11 Y56 55 
Y56 H12 H12 H 0 1 N N N N N N 24.057 24.516 13.871 2.025   -0.240 -1.523 H12 Y56 56 
Y56 H13 H13 H 0 1 N N N N N N 23.006 25.973 13.879 2.495   0.127  0.163  H13 Y56 57 
Y56 H14 H14 H 0 1 N N N N N N 24.202 24.534 15.983 0.303   0.971  0.708  H14 Y56 58 
Y56 H15 H15 H 0 1 N N N N N N 23.359 26.120 15.961 0.492   1.533  -0.987 H15 Y56 59 
Y56 H16 H16 H 0 1 N N N N N N 21.161 25.119 16.323 -0.779  -0.315 -1.862 H16 Y56 60 
Y56 H17 H17 H 0 1 N N N N N N 20.358 21.407 21.136 -4.205  -1.856 -3.454 H17 Y56 61 
Y56 H18 H18 H 0 1 N N N N N N 18.062 21.692 20.208 -6.386  -1.253 -2.444 H18 Y56 62 
Y56 H19 H19 H 0 1 N N N N N N 18.930 23.482 15.463 -7.333  -2.681 -0.658 H19 Y56 63 
Y56 H20 H20 H 0 1 N N N N N N 17.881 23.929 13.241 -9.492  -3.668 -0.038 H20 Y56 64 
Y56 H21 H21 H 0 1 N N N N N N 15.384 24.010 13.077 -11.206 -2.260 1.082  H21 Y56 65 
Y56 H22 H22 H 0 1 N N N N N N 14.002 23.660 15.132 -10.752 0.071  1.559  H22 Y56 66 
Y56 H23 H23 H 0 1 N N N N N N 17.010 24.333 20.650 -5.477  2.225  -1.605 H23 Y56 67 
Y56 H24 H24 H 0 1 N N N N N N 16.526 23.999 23.055 -4.028  4.213  -1.619 H24 Y56 68 
Y56 H25 H25 H 0 1 N N N N N N 14.861 22.302 23.751 -3.926  5.681  0.352  H25 Y56 69 
Y56 H26 H26 H 0 1 N N N N N N 13.716 20.888 22.027 -5.271  5.169  2.348  H26 Y56 70 
Y56 H27 H27 H 0 1 N N N N N N 14.280 21.156 19.631 -6.733  3.190  2.377  H27 Y56 71 
Y56 H28 H28 H 0 1 N N N N N N 20.682 23.027 15.583 -0.678  -1.888 0.706  H28 Y56 72 
Y56 H29 H29 H 0 1 N N N N N N 22.416 22.557 15.618 -0.439  -2.450 -0.970 H29 Y56 73 
Y56 H30 H30 H 0 1 N N N N N N 20.403 22.766 10.726 3.857   -3.852 1.926  H30 Y56 74 
Y56 H31 H31 H 0 1 N N N N N N 20.608 23.416 8.367  6.293   -3.536 1.947  H31 Y56 75 
Y56 H32 H32 H 0 1 N N N N N N 16.940 22.418 4.575  13.438  4.030  0.160  H32 Y56 76 
Y56 H33 H33 H 0 1 N N N N N N 16.953 21.787 2.893  13.399  2.756  1.403  H33 Y56 77 
Y56 H34 H34 H 0 1 N N N N N N 17.539 20.758 4.244  13.885  2.360  -0.263 H34 Y56 78 
Y56 H36 H36 H 0 1 N N N N N N 21.670 26.754 7.289  8.234   -2.603 0.585  H36 Y56 79 
Y56 H37 H37 H 0 1 N N N N N N 22.890 23.109 17.615 -1.973  0.558  0.680  H37 Y56 80 
# 
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 
Y56 C01 N02 SING N N 1  
Y56 N02 C44 SING N N 2  
Y56 N02 C03 SING N N 3  
Y56 C04 C03 SING N N 4  
Y56 C04 C05 SING N N 5  
Y56 O43 C06 DOUB N N 6  
Y56 C05 C06 SING N N 7  
Y56 C06 N07 SING N N 8  
Y56 N07 C08 SING N N 9  
Y56 C08 C42 DOUB Y N 10 
Y56 C08 C09 SING Y N 11 
Y56 C42 C41 SING Y N 12 
Y56 C09 C10 DOUB Y N 13 
Y56 C41 C11 DOUB Y N 14 
Y56 C10 C11 SING Y N 15 
Y56 C11 C12 SING N N 16 
Y56 C12 O40 DOUB N N 17 
Y56 C12 N13 SING N N 18 
Y56 C27 C26 SING Y N 19 
Y56 C27 C28 DOUB Y N 20 
Y56 N13 C14 SING N N 21 
Y56 N13 C39 SING N N 22 
Y56 C26 C25 DOUB Y N 23 
Y56 C14 C15 SING N N 24 
Y56 C28 N29 SING Y N 25 
Y56 C25 C24 SING Y N 26 
Y56 C39 C16 SING N N 27 
Y56 C15 C16 SING N N 28 
Y56 C16 N17 SING N N 29 
Y56 N29 C24 SING Y N 30 
Y56 N29 N30 SING Y N 31 
Y56 C24 C23 DOUB Y N 32 
Y56 N30 C31 DOUB Y N 33 
Y56 N17 C18 SING N N 34 
Y56 C23 C22 SING N N 35 
Y56 C23 C31 SING Y N 36 
Y56 N38 C18 DOUB Y N 37 
Y56 N38 C22 SING Y N 38 
Y56 C18 N19 SING Y N 39 
Y56 C22 C21 DOUB Y N 40 
Y56 C31 C32 SING N N 41 
Y56 N19 C20 DOUB Y N 42 
Y56 C21 C20 SING Y N 43 
Y56 C32 C37 DOUB Y N 44 
Y56 C32 C33 SING Y N 45 
Y56 C37 C36 SING Y N 46 
Y56 C33 C34 DOUB Y N 47 
Y56 C36 C35 DOUB Y N 48 
Y56 C34 C35 SING Y N 49 
Y56 C01 H1  SING N N 50 
Y56 C01 H2  SING N N 51 
Y56 C01 H3  SING N N 52 
Y56 C03 H4  SING N N 53 
Y56 C03 H5  SING N N 54 
Y56 C04 H6  SING N N 55 
Y56 C04 H7  SING N N 56 
Y56 C05 H8  SING N N 57 
Y56 C05 H9  SING N N 58 
Y56 C09 H10 SING N N 59 
Y56 C10 H11 SING N N 60 
Y56 C14 H12 SING N N 61 
Y56 C14 H13 SING N N 62 
Y56 C15 H14 SING N N 63 
Y56 C15 H15 SING N N 64 
Y56 C16 H16 SING N N 65 
Y56 C20 H17 SING N N 66 
Y56 C21 H18 SING N N 67 
Y56 C25 H19 SING N N 68 
Y56 C26 H20 SING N N 69 
Y56 C27 H21 SING N N 70 
Y56 C28 H22 SING N N 71 
Y56 C33 H23 SING N N 72 
Y56 C34 H24 SING N N 73 
Y56 C35 H25 SING N N 74 
Y56 C36 H26 SING N N 75 
Y56 C37 H27 SING N N 76 
Y56 C39 H28 SING N N 77 
Y56 C39 H29 SING N N 78 
Y56 C41 H30 SING N N 79 
Y56 C42 H31 SING N N 80 
Y56 C44 H32 SING N N 81 
Y56 C44 H33 SING N N 82 
Y56 C44 H34 SING N N 83 
Y56 N07 H36 SING N N 84 
Y56 N17 H37 SING N N 85 
# 
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 
Y56 SMILES           ACDLabs              12.01 "CN(C)CCCC(=O)Nc1ccc(cc1)C(=O)N1CCC(C1)Nc1nccc(n1)c1c2ccccn2nc1c1ccccc1"                                                                                                                                                                                
Y56 InChI            InChI                1.03  "InChI=1S/C34H36N8O2/c1-40(2)20-8-12-30(43)36-26-15-13-25(14-16-26)33(44)41-22-18-27(23-41)37-34-35-19-17-28(38-34)31-29-11-6-7-21-42(29)39-32(31)24-9-4-3-5-10-24/h3-7,9-11,13-17,19,21,27H,8,12,18,20,22-23H2,1-2H3,(H,36,43)(H,35,37,38)/t27-/m0/s1" 
Y56 InChIKey         InChI                1.03  HDSKLOGUAXMLMX-MHZLTWQESA-N                                                                                                                                                                                                                             
Y56 SMILES_CANONICAL CACTVS               3.385 "CN(C)CCCC(=O)Nc1ccc(cc1)C(=O)N2CC[C@@H](C2)Nc3nccc(n3)c4c5ccccn5nc4c6ccccc6"                                                                                                                                                                           
Y56 SMILES           CACTVS               3.385 "CN(C)CCCC(=O)Nc1ccc(cc1)C(=O)N2CC[CH](C2)Nc3nccc(n3)c4c5ccccn5nc4c6ccccc6"                                                                                                                                                                             
Y56 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CN(C)CCCC(=O)Nc1ccc(cc1)C(=O)N2CC[C@@H](C2)Nc3nccc(n3)c4c5ccccn5nc4c6ccccc6"                                                                                                                                                                           
Y56 SMILES           "OpenEye OEToolkits" 2.0.7 "CN(C)CCCC(=O)Nc1ccc(cc1)C(=O)N2CCC(C2)Nc3nccc(n3)c4c5ccccn5nc4c6ccccc6"                                                                                                                                                                                
# 
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 
Y56 "SYSTEMATIC NAME" ACDLabs              12.01 "4-(dimethylamino)-N-{4-[(3S)-3-({4-[(8R)-2-phenylpyrazolo[1,5-a]pyridin-3-yl]pyrimidin-2-yl}amino)pyrrolidine-1-carbonyl]phenyl}butanamide"   
Y56 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "4-(dimethylamino)-~{N}-[4-[(3~{S})-3-[[4-(2-phenylpyrazolo[1,5-a]pyridin-3-yl)pyrimidin-2-yl]amino]pyrrolidin-1-yl]carbonylphenyl]butanamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
Y56 "Create component" 2021-10-12 RCSB 
Y56 "Initial release"  2023-06-28 RCSB 
Y56 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            Y56 
_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               C04 
_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      ? 
# 
