data_S56
# 
_chem_comp.id                                    S56 
_chem_comp.name                                  "(2S)-3-[4-amino-7-(2-methoxyethyl)-5-(4-phenoxyphenyl)-7H-pyrrolo[2,3-d]pyrimidin-6-yl]-2-cyano-N-(propan-2-yl)propanamide" 
_chem_comp.type                                  NON-POLYMER 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C28 H30 N6 O3" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "Rao-IV-156, bound form" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2016-09-28 
_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                        498.576 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     S56 
_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        5TEH 
_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 
S56 O1  O1  O 0 1 N N N N N N -5.559  -42.960 4.919  0.138  -3.270 -1.456 O1  S56 1  
S56 C21 C1  C 0 1 N N N N N N -5.286  -41.839 4.486  0.399  -3.049 -0.292 C21 S56 2  
S56 N4  N1  N 0 1 N N N N N N -5.096  -41.580 3.182  0.204  -4.006 0.636  N4  S56 3  
S56 C22 C2  C 0 1 N N N N N N -4.098  -42.253 2.339  -0.324 -5.314 0.239  C22 S56 4  
S56 C24 C3  C 0 1 N N N N N N -2.703  -42.104 2.918  0.827  -6.208 -0.229 C24 S56 5  
S56 C23 C4  C 0 1 N N N N N N -4.481  -43.701 2.120  -1.023 -5.966 1.434  C23 S56 6  
S56 C19 C5  C 0 1 N N S N N N -5.237  -40.617 5.409  0.948  -1.706 0.115  C19 S56 7  
S56 C20 C6  C 0 1 N N N N N N -3.882  -40.374 5.928  0.034  -1.075 1.082  C20 S56 8  
S56 N3  N2  N 0 1 N N N N N N -2.841  -40.138 6.330  -0.670 -0.589 1.829  N3  S56 9  
S56 C18 C7  C 0 1 N N N N N N -6.240  -40.710 6.591  1.078  -0.812 -1.120 C18 S56 10 
S56 C17 C8  C 0 1 Y N N N N N -7.268  -39.546 6.493  1.740  0.486  -0.734 C17 S56 11 
S56 N5  N3  N 0 1 Y N N N N N -8.385  -39.603 5.681  3.088  0.720  -0.754 N5  S56 12 
S56 C25 C9  C 0 1 N N N N N N -8.491  -40.432 4.462  4.102  -0.258 -1.157 C25 S56 13 
S56 C26 C10 C 0 1 N N N N N N -9.704  -40.280 3.563  4.555  -1.056 0.067  C26 S56 14 
S56 O2  O2  O 0 1 N N N N N N -10.850 -40.744 4.251  5.544  -2.010 -0.325 O2  S56 15 
S56 C27 C11 C 0 1 N N N N N N -12.079 -40.284 3.718  6.037  -2.812 0.749  C27 S56 16 
S56 C2  C12 C 0 1 Y N N N N N -9.184  -38.521 6.035  3.354  1.999  -0.345 C2  S56 17 
S56 N2  N4  N 0 1 Y N N N N N -10.482 -38.368 5.719  4.470  2.709  -0.189 N2  S56 18 
S56 C1  C13 C 0 1 Y N N N N N -10.984 -37.213 6.156  4.420  3.955  0.232  C1  S56 19 
S56 N1  N5  N 0 1 Y N N N N N -10.368 -36.243 6.827  3.286  4.565  0.520  N1  S56 20 
S56 C4  C14 C 0 1 Y N N N N N -7.149  -38.282 7.033  1.090  1.601  -0.319 C4  S56 21 
S56 C3  C15 C 0 1 Y N N N N N -8.400  -37.605 6.764  2.122  2.610  -0.050 C3  S56 22 
S56 C   C16 C 0 1 Y N N N N N -9.068  -36.411 7.151  2.119  3.938  0.395  C   S56 23 
S56 N   N6  N 0 1 N N N N N N -8.481  -35.431 7.846  0.932  4.581  0.697  N   S56 24 
S56 C5  C17 C 0 1 Y N N N N N -5.963  -37.712 7.728  -0.375 1.768  -0.164 C5  S56 25 
S56 C16 C18 C 0 1 Y N N N N N -6.030  -37.380 9.078  -0.924 1.982  1.100  C16 S56 26 
S56 C15 C19 C 0 1 Y N N N N N -4.935  -36.846 9.737  -2.287 2.137  1.241  C15 S56 27 
S56 C8  C20 C 0 1 Y N N N N N -3.742  -36.653 9.055  -3.112 2.080  0.126  C8  S56 28 
S56 C7  C21 C 0 1 Y N N N N N -3.657  -36.975 7.702  -2.569 1.865  -1.134 C7  S56 29 
S56 C6  C22 C 0 1 Y N N N N N -4.765  -37.493 7.045  -1.206 1.716  -1.282 C6  S56 30 
S56 O   O3  O 0 1 N N N N N N -2.697  -36.188 9.865  -4.455 2.233  0.268  O   S56 31 
S56 C9  C23 C 0 1 Y N N N N N -1.685  -35.339 9.403  -5.250 1.159  0.019  C9  S56 32 
S56 C14 C24 C 0 1 Y N N N N N -0.454  -35.486 10.035 -6.630 1.299  0.026  C14 S56 33 
S56 C13 C25 C 0 1 Y N N N N N 0.597   -34.656 9.683  -7.436 0.206  -0.228 C13 S56 34 
S56 C12 C26 C 0 1 Y N N N N N 0.428   -33.685 8.720  -6.867 -1.027 -0.489 C12 S56 35 
S56 C11 C27 C 0 1 Y N N N N N -0.798  -33.538 8.097  -5.492 -1.170 -0.498 C11 S56 36 
S56 C10 C28 C 0 1 Y N N N N N -1.861  -34.367 8.426  -4.682 -0.079 -0.249 C10 S56 37 
S56 H1  H1  H 0 1 N N N N N N -5.672  -40.882 2.756  0.413  -3.830 1.566  H1  S56 38 
S56 H2  H2  H 0 1 N N N N N N -4.099  -41.761 1.355  -1.038 -5.186 -0.574 H2  S56 39 
S56 H3  H3  H 0 1 N N N N N N -2.475  -41.037 3.057  1.541  -6.336 0.584  H3  S56 40 
S56 H4  H4  H 0 1 N N N N N N -2.652  -42.619 3.889  0.434  -7.181 -0.524 H4  S56 41 
S56 H5  H5  H 0 1 N N N N N N -1.970  -42.548 2.228  1.324  -5.743 -1.080 H5  S56 42 
S56 H6  H6  H 0 1 N N N N N N -5.497  -43.753 1.701  -0.308 -6.094 2.247  H6  S56 43 
S56 H7  H7  H 0 1 N N N N N N -3.771  -44.166 1.420  -1.842 -5.330 1.767  H7  S56 44 
S56 H8  H8  H 0 1 N N N N N N -4.453  -44.237 3.080  -1.415 -6.939 1.139  H8  S56 45 
S56 H9  H9  H 0 1 N N N N N N -5.530  -39.744 4.808  1.928  -1.837 0.573  H9  S56 46 
S56 H10 H10 H 0 1 N N N N N N -6.771  -41.672 6.546  1.682  -1.318 -1.873 H10 S56 47 
S56 H11 H11 H 0 1 N N N N N N -5.693  -40.637 7.543  0.087  -0.608 -1.527 H11 S56 48 
S56 H12 H12 H 0 1 N N N N N N -8.461  -41.483 4.785  3.678  -0.937 -1.897 H12 S56 49 
S56 H13 H13 H 0 1 N N N N N N -7.606  -40.212 3.847  4.957  0.262  -1.589 H13 S56 50 
S56 H14 H14 H 0 1 N N N N N N -9.560  -40.871 2.647  4.979  -0.377 0.807  H14 S56 51 
S56 H15 H15 H 0 1 N N N N N N -9.837  -39.220 3.299  3.700  -1.576 0.499  H15 S56 52 
S56 H16 H16 H 0 1 N N N N N N -12.912 -40.691 4.311  5.212  -3.369 1.195  H16 S56 53 
S56 H17 H17 H 0 1 N N N N N N -12.106 -39.185 3.755  6.783  -3.510 0.370  H17 S56 54 
S56 H18 H18 H 0 1 N N N N N N -12.174 -40.619 2.674  6.491  -2.170 1.504  H18 S56 55 
S56 H19 H19 H 0 1 N N N N N N -12.028 -37.042 5.937  5.346  4.500  0.347  H19 S56 56 
S56 H20 H20 H 0 1 N N N N N N -9.142  -34.700 8.016  0.944  5.501  1.004  H20 S56 57 
S56 H21 H21 H 0 1 N N N N N N -8.151  -35.792 8.718  0.088  4.112  0.602  H21 S56 58 
S56 H22 H22 H 0 1 N N N N N N -6.950  -37.541 9.620  -0.282 2.027  1.967  H22 S56 59 
S56 H23 H23 H 0 1 N N N N N N -5.010  -36.580 10.781 -2.713 2.303  2.219  H23 S56 60 
S56 H24 H24 H 0 1 N N N N N N -2.732  -36.822 7.166  -3.214 1.821  -1.999 H24 S56 61 
S56 H25 H25 H 0 1 N N N N N N -4.699  -37.729 5.993  -0.784 1.549  -2.262 H25 S56 62 
S56 H26 H26 H 0 1 N N N N N N -0.319  -36.242 10.794 -7.075 2.262  0.231  H26 S56 63 
S56 H27 H27 H 0 1 N N N N N N 1.556   -34.770 10.167 -8.510 0.314  -0.221 H27 S56 64 
S56 H28 H28 H 0 1 N N N N N N 1.252   -33.040 8.452  -7.498 -1.881 -0.688 H28 S56 65 
S56 H29 H29 H 0 1 N N N N N N -0.929  -32.771 7.348  -5.050 -2.133 -0.706 H29 S56 66 
S56 H30 H30 H 0 1 N N N N N N -2.813  -34.258 7.929  -3.608 -0.190 -0.256 H30 S56 67 
# 
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 
S56 C23 C22 SING N N 1  
S56 C22 C24 SING N N 2  
S56 C22 N4  SING N N 3  
S56 N4  C21 SING N N 4  
S56 C26 O2  SING N N 5  
S56 C26 C25 SING N N 6  
S56 C27 O2  SING N N 7  
S56 C25 N5  SING N N 8  
S56 C21 O1  DOUB N N 9  
S56 C21 C19 SING N N 10 
S56 C19 C20 SING N N 11 
S56 C19 C18 SING N N 12 
S56 N5  C2  SING Y N 13 
S56 N5  C17 SING Y N 14 
S56 N2  C2  DOUB Y N 15 
S56 N2  C1  SING Y N 16 
S56 C20 N3  TRIP N N 17 
S56 C2  C3  SING Y N 18 
S56 C1  N1  DOUB Y N 19 
S56 C17 C18 SING N N 20 
S56 C17 C4  DOUB Y N 21 
S56 C3  C4  SING Y N 22 
S56 C3  C   DOUB Y N 23 
S56 N1  C   SING Y N 24 
S56 C4  C5  SING N N 25 
S56 C6  C7  DOUB Y N 26 
S56 C6  C5  SING Y N 27 
S56 C   N   SING N N 28 
S56 C7  C8  SING Y N 29 
S56 C5  C16 DOUB Y N 30 
S56 C11 C10 DOUB Y N 31 
S56 C11 C12 SING Y N 32 
S56 C10 C9  SING Y N 33 
S56 C12 C13 DOUB Y N 34 
S56 C8  C15 DOUB Y N 35 
S56 C8  O   SING N N 36 
S56 C16 C15 SING Y N 37 
S56 C9  O   SING N N 38 
S56 C9  C14 DOUB Y N 39 
S56 C13 C14 SING Y N 40 
S56 N4  H1  SING N N 41 
S56 C22 H2  SING N N 42 
S56 C24 H3  SING N N 43 
S56 C24 H4  SING N N 44 
S56 C24 H5  SING N N 45 
S56 C23 H6  SING N N 46 
S56 C23 H7  SING N N 47 
S56 C23 H8  SING N N 48 
S56 C19 H9  SING N N 49 
S56 C18 H10 SING N N 50 
S56 C18 H11 SING N N 51 
S56 C25 H12 SING N N 52 
S56 C25 H13 SING N N 53 
S56 C26 H14 SING N N 54 
S56 C26 H15 SING N N 55 
S56 C27 H16 SING N N 56 
S56 C27 H17 SING N N 57 
S56 C27 H18 SING N N 58 
S56 C1  H19 SING N N 59 
S56 N   H20 SING N N 60 
S56 N   H21 SING N N 61 
S56 C16 H22 SING N N 62 
S56 C15 H23 SING N N 63 
S56 C7  H24 SING N N 64 
S56 C6  H25 SING N N 65 
S56 C14 H26 SING N N 66 
S56 C13 H27 SING N N 67 
S56 C12 H28 SING N N 68 
S56 C11 H29 SING N N 69 
S56 C10 H30 SING N N 70 
# 
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 
S56 SMILES           ACDLabs              12.01 "O=C(C(C#N)Cc3c(c2ccc(Oc1ccccc1)cc2)c4c(n3CCOC)ncnc4N)NC(C)C"                                                                                                                                            
S56 InChI            InChI                1.03  "InChI=1S/C28H30N6O3/c1-18(2)33-28(35)20(16-29)15-23-24(25-26(30)31-17-32-27(25)34(23)13-14-36-3)19-9-11-22(12-10-19)37-21-7-5-4-6-8-21/h4-12,17-18,20H,13-15H2,1-3H3,(H,33,35)(H2,30,31,32)/t20-/m0/s1" 
S56 InChIKey         InChI                1.03  GAMOPTBAZOPJOL-FQEVSTJZSA-N                                                                                                                                                                              
S56 SMILES_CANONICAL CACTVS               3.385 "COCCn1c(C[C@@H](C#N)C(=O)NC(C)C)c(c2ccc(Oc3ccccc3)cc2)c4c(N)ncnc14"                                                                                                                                     
S56 SMILES           CACTVS               3.385 "COCCn1c(C[CH](C#N)C(=O)NC(C)C)c(c2ccc(Oc3ccccc3)cc2)c4c(N)ncnc14"                                                                                                                                       
S56 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.6 "CC(C)NC(=O)[C@@H](Cc1c(c2c(ncnc2n1CCOC)N)c3ccc(cc3)Oc4ccccc4)C#N"                                                                                                                                       
S56 SMILES           "OpenEye OEToolkits" 2.0.6 "CC(C)NC(=O)C(Cc1c(c2c(ncnc2n1CCOC)N)c3ccc(cc3)Oc4ccccc4)C#N"                                                                                                                                            
# 
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 
S56 "SYSTEMATIC NAME" ACDLabs              12.01 "(2S)-3-[4-amino-7-(2-methoxyethyl)-5-(4-phenoxyphenyl)-7H-pyrrolo[2,3-d]pyrimidin-6-yl]-2-cyano-N-(propan-2-yl)propanamide"   
S56 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.6 "(2~{S})-3-[4-azanyl-7-(2-methoxyethyl)-5-(4-phenoxyphenyl)pyrrolo[2,3-d]pyrimidin-6-yl]-2-cyano-~{N}-propan-2-yl-propanamide" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
S56 "Create component" 2016-09-28 RCSB 
S56 "Initial release"  2017-09-27 RCSB 
S56 "Modify synonyms"  2021-03-13 RCSB 
S56 "Modify PCM"       2024-09-27 PDBE 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      S56 
_pdbx_chem_comp_synonyms.name         "Rao-IV-156, bound form" 
_pdbx_chem_comp_synonyms.provenance   PDB 
_pdbx_chem_comp_synonyms.type         ? 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            S56 
_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               C18 
_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      ? 
# 
