data_XRB
# 
_chem_comp.id                                    XRB 
_chem_comp.name                                  "5-[(4-{4-[(E)-2-cyanoethenyl]-2,6-dimethylphenoxy}pyrimidin-2-yl)amino]-2-[4-(methanesulfonyl)piperazin-1-yl]benzonitrile" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C27 H27 N7 O3 S" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         ? 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-12-06 
_chem_comp.pdbx_modified_date                    2023-10-13 
_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                        529.613 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     XRB 
_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        8FE8 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  RCSB 
# 
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.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 
XRB N   N1  N 0 1 N N N 46.337 -28.471 42.099 -9.790 4.573  1.239  N   XRB 1  
XRB C   C1  C 0 1 N N N 49.913 -23.344 37.316 -5.756 -1.771 -2.503 C   XRB 2  
XRB O   O1  O 0 1 N N N 52.524 -24.441 36.980 -4.808 -2.718 -0.019 O   XRB 3  
XRB C1  C2  C 0 1 Y N N 50.346 -24.643 37.944 -6.087 -1.095 -1.197 C1  XRB 4  
XRB C10 C3  C 0 1 Y N N 51.621 -25.170 37.743 -5.590 -1.608 -0.005 C10 XRB 5  
XRB C11 C4  C 0 1 Y N N 52.608 -24.727 35.647 -3.468 -2.551 -0.136 C11 XRB 6  
XRB C12 C5  C 0 1 Y N N 53.275 -23.794 34.852 -2.617 -3.655 -0.156 C12 XRB 7  
XRB C13 C6  C 0 1 Y N N 53.365 -24.143 33.520 -1.257 -3.437 -0.277 C13 XRB 8  
XRB C14 C7  C 0 1 Y N N 52.245 -26.078 33.881 -1.639 -1.166 -0.346 C14 XRB 9  
XRB C15 C8  C 0 1 Y N N 51.274 -28.433 33.938 0.257  0.323  -0.450 C15 XRB 10 
XRB C16 C9  C 0 1 Y N N 50.878 -28.482 35.271 0.802  1.352  -1.196 C16 XRB 11 
XRB C17 C10 C 0 1 Y N N 50.421 -29.676 35.812 2.184  1.560  -1.191 C17 XRB 12 
XRB C18 C11 C 0 1 N N N 50.026 -29.715 37.197 2.756  2.623  -1.960 C18 XRB 13 
XRB C19 C12 C 0 1 Y N N 50.350 -30.835 35.024 3.009  0.720  -0.426 C19 XRB 14 
XRB C2  C13 C 0 1 Y N N 49.475 -25.365 38.755 -6.876 0.034  -1.188 C2  XRB 15 
XRB C20 C14 C 0 1 N N N 48.429 -32.286 35.332 4.867  1.195  0.946  C20 XRB 16 
XRB C21 C15 C 0 1 N N N 47.851 -33.168 36.416 6.349  1.584  0.892  C21 XRB 17 
XRB C22 C16 C 0 1 N N N 49.461 -36.144 38.576 7.818  -1.564 1.791  C22 XRB 18 
XRB C23 C17 C 0 1 N N N 49.803 -34.459 35.677 6.579  0.100  -1.137 C23 XRB 19 
XRB C24 C18 C 0 1 N N N 50.657 -33.218 35.497 5.089  -0.230 -1.003 C24 XRB 20 
XRB C25 C19 C 0 1 Y N N 50.755 -30.775 33.695 2.446  -0.309 0.317  C25 XRB 21 
XRB C26 C20 C 0 1 Y N N 51.213 -29.583 33.158 1.081  -0.506 0.306  C26 XRB 22 
XRB C3  C21 C 0 1 Y N N 49.852 -26.572 39.349 -7.182 0.660  0.025  C3  XRB 23 
XRB C4  C22 C 0 1 N N N 48.939 -27.316 40.222 -8.025 1.865  0.041  C4  XRB 24 
XRB C5  C23 C 0 1 N N N 47.701 -26.960 40.530 -8.319 2.468  1.212  C5  XRB 25 
XRB C6  C24 C 0 1 N N N 46.930 -27.787 41.399 -9.139 3.642  1.227  C6  XRB 26 
XRB C7  C25 C 0 1 Y N N 51.137 -27.060 39.107 -6.685 0.136  1.224  C7  XRB 27 
XRB C8  C26 C 0 1 Y N N 52.042 -26.375 38.305 -5.892 -0.990 1.203  C8  XRB 28 
XRB C9  C27 C 0 1 N N N 53.424 -26.929 38.071 -5.351 -1.552 2.492  C9  XRB 29 
XRB N1  N2  N 0 1 Y N N 52.865 -25.273 33.006 -0.806 -2.196 -0.369 N1  XRB 30 
XRB N2  N3  N 0 1 N N N 51.727 -27.228 33.356 -1.129 0.118  -0.450 N2  XRB 31 
XRB N3  N4  N 0 1 N N N 49.705 -29.784 38.291 3.209  3.467  -2.571 N3  XRB 32 
XRB N4  N5  N 0 1 N N N 49.838 -32.008 35.605 4.387  0.918  -0.414 N4  XRB 33 
XRB N5  N6  N 0 1 N N N 48.828 -34.221 36.758 7.083  0.529  0.176  N5  XRB 34 
XRB N6  N7  N 0 1 Y N N 52.086 -25.859 35.197 -2.948 -1.334 -0.237 N6  XRB 35 
XRB O1  O2  O 0 1 N N N 47.110 -35.113 38.273 8.957  0.847  1.696  O1  XRB 36 
XRB O2  O3  O 0 1 N N N 48.012 -36.520 36.469 9.182  -0.608 -0.292 O2  XRB 37 
XRB S   S1  S 0 1 N N N 48.223 -35.543 37.490 8.440  -0.156 0.832  S   XRB 38 
XRB H1  H1  H 0 1 N N N 49.463 -23.544 36.332 -4.838 -1.347 -2.909 H1  XRB 39 
XRB H2  H2  H 0 1 N N N 49.173 -22.852 37.965 -5.620 -2.839 -2.334 H2  XRB 40 
XRB H3  H3  H 0 1 N N N 50.787 -22.687 37.193 -6.572 -1.616 -3.209 H3  XRB 41 
XRB H4  H4  H 0 1 N N N 53.686 -22.876 35.246 -3.011 -4.657 -0.080 H4  XRB 42 
XRB H5  H5  H 0 1 N N N 53.870 -23.462 32.851 -0.571 -4.271 -0.296 H5  XRB 43 
XRB H6  H6  H 0 1 N N N 50.926 -27.594 35.883 0.161  1.994  -1.783 H6  XRB 44 
XRB H7  H7  H 0 1 N N N 48.481 -24.982 38.930 -7.257 0.434  -2.115 H7  XRB 45 
XRB H8  H8  H 0 1 N N N 47.871 -31.338 35.299 4.747  0.305  1.563  H8  XRB 46 
XRB H9  H9  H 0 1 N N N 48.341 -32.797 34.362 4.291  2.015  1.375  H9  XRB 47 
XRB H10 H10 H 0 1 N N N 47.636 -32.561 37.308 6.460  2.531  0.363  H10 XRB 48 
XRB H11 H11 H 0 1 N N N 46.921 -33.632 36.056 6.739  1.679  1.905  H11 XRB 49 
XRB H12 H12 H 0 1 N N N 49.641 -35.407 39.372 7.294  -2.253 1.128  H12 XRB 50 
XRB H13 H13 H 0 1 N N N 49.128 -37.092 39.023 8.654  -2.080 2.264  H13 XRB 51 
XRB H14 H14 H 0 1 N N N 50.392 -36.311 38.014 7.131  -1.206 2.559  H14 XRB 52 
XRB H15 H15 H 0 1 N N N 49.269 -34.678 34.741 7.123  -0.786 -1.466 H15 XRB 53 
XRB H16 H16 H 0 1 N N N 50.445 -35.313 35.941 6.716  0.903  -1.862 H16 XRB 54 
XRB H17 H17 H 0 1 N N N 51.131 -33.246 34.505 4.674  -0.444 -1.988 H17 XRB 55 
XRB H18 H18 H 0 1 N N N 51.435 -33.199 36.275 4.966  -1.101 -0.359 H18 XRB 56 
XRB H19 H19 H 0 1 N N N 50.712 -31.661 33.079 3.079  -0.956 0.906  H19 XRB 57 
XRB H20 H20 H 0 1 N N N 51.525 -29.546 32.125 0.649  -1.307 0.887  H20 XRB 58 
XRB H21 H21 H 0 1 N N N 49.308 -28.235 40.652 -8.408 2.268  -0.885 H21 XRB 59 
XRB H22 H22 H 0 1 N N N 47.279 -26.051 40.127 -7.935 2.065  2.138  H22 XRB 60 
XRB H23 H23 H 0 1 N N N 51.436 -27.996 39.555 -6.918 0.616  2.162  H23 XRB 61 
XRB H24 H24 H 0 1 N N N 54.107 -26.552 38.846 -4.384 -1.097 2.710  H24 XRB 62 
XRB H25 H25 H 0 1 N N N 53.391 -28.028 38.115 -6.045 -1.335 3.303  H25 XRB 63 
XRB H26 H26 H 0 1 N N N 53.783 -26.612 37.081 -5.231 -2.631 2.396  H26 XRB 64 
XRB H27 H27 H 0 1 N N N 51.654 -27.214 32.359 -1.731 0.874  -0.523 H27 XRB 65 
# 
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 
XRB N1  C13 DOUB Y N 1  
XRB N1  C14 SING Y N 2  
XRB C26 C25 DOUB Y N 3  
XRB C26 C15 SING Y N 4  
XRB N2  C14 SING N N 5  
XRB N2  C15 SING N N 6  
XRB C13 C12 SING Y N 7  
XRB C25 C19 SING Y N 8  
XRB C14 N6  DOUB Y N 9  
XRB C15 C16 DOUB Y N 10 
XRB C12 C11 DOUB Y N 11 
XRB C19 N4  SING N N 12 
XRB C19 C17 DOUB Y N 13 
XRB N6  C11 SING Y N 14 
XRB C16 C17 SING Y N 15 
XRB C20 N4  SING N N 16 
XRB C20 C21 SING N N 17 
XRB C24 N4  SING N N 18 
XRB C24 C23 SING N N 19 
XRB C11 O   SING N N 20 
XRB C23 N5  SING N N 21 
XRB C17 C18 SING N N 22 
XRB C21 N5  SING N N 23 
XRB O2  S   DOUB N N 24 
XRB N5  S   SING N N 25 
XRB O   C10 SING N N 26 
XRB C18 N3  TRIP N N 27 
XRB C   C1  SING N N 28 
XRB S   O1  DOUB N N 29 
XRB S   C22 SING N N 30 
XRB C10 C1  DOUB Y N 31 
XRB C10 C8  SING Y N 32 
XRB C1  C2  SING Y N 33 
XRB C9  C8  SING N N 34 
XRB C8  C7  DOUB Y N 35 
XRB C2  C3  DOUB Y N 36 
XRB C7  C3  SING Y N 37 
XRB C3  C4  SING N N 38 
XRB C4  C5  DOUB N E 39 
XRB C5  C6  SING N N 40 
XRB C6  N   TRIP N N 41 
XRB C   H1  SING N N 42 
XRB C   H2  SING N N 43 
XRB C   H3  SING N N 44 
XRB C12 H4  SING N N 45 
XRB C13 H5  SING N N 46 
XRB C16 H6  SING N N 47 
XRB C2  H7  SING N N 48 
XRB C20 H8  SING N N 49 
XRB C20 H9  SING N N 50 
XRB C21 H10 SING N N 51 
XRB C21 H11 SING N N 52 
XRB C22 H12 SING N N 53 
XRB C22 H13 SING N N 54 
XRB C22 H14 SING N N 55 
XRB C23 H15 SING N N 56 
XRB C23 H16 SING N N 57 
XRB C24 H17 SING N N 58 
XRB C24 H18 SING N N 59 
XRB C25 H19 SING N N 60 
XRB C26 H20 SING N N 61 
XRB C4  H21 SING N N 62 
XRB C5  H22 SING N N 63 
XRB C7  H23 SING N N 64 
XRB C9  H24 SING N N 65 
XRB C9  H25 SING N N 66 
XRB C9  H26 SING N N 67 
XRB N2  H27 SING N N 68 
# 
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 
XRB SMILES           ACDLabs              12.01 "O=S(C)(=O)N1CCN(CC1)c1ccc(Nc2nc(Oc3c(C)cc(\C=C\C#N)cc3C)ccn2)cc1C#N"                                                                                                                        
XRB InChI            InChI                1.06  "InChI=1S/C27H27N7O3S/c1-19-15-21(5-4-9-28)16-20(2)26(19)37-25-8-10-30-27(32-25)31-23-6-7-24(22(17-23)18-29)33-11-13-34(14-12-33)38(3,35)36/h4-8,10,15-17H,11-14H2,1-3H3,(H,30,31,32)/b5-4+" 
XRB InChIKey         InChI                1.06  MMKBLGUSICHJOZ-SNAWJCMRSA-N                                                                                                                                                                  
XRB SMILES_CANONICAL CACTVS               3.385 "Cc1cc(\C=C\C#N)cc(C)c1Oc2ccnc(Nc3ccc(N4CCN(CC4)[S](C)(=O)=O)c(c3)C#N)n2"                                                                                                                    
XRB SMILES           CACTVS               3.385 "Cc1cc(C=CC#N)cc(C)c1Oc2ccnc(Nc3ccc(N4CCN(CC4)[S](C)(=O)=O)c(c3)C#N)n2"                                                                                                                      
XRB SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1cc(cc(c1Oc2ccnc(n2)Nc3ccc(c(c3)C#N)N4CCN(CC4)S(=O)(=O)C)C)/C=C/C#N"                                                                                                                      
XRB SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1cc(cc(c1Oc2ccnc(n2)Nc3ccc(c(c3)C#N)N4CCN(CC4)S(=O)(=O)C)C)C=CC#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 
XRB "SYSTEMATIC NAME" ACDLabs              12.01 "5-[(4-{4-[(E)-2-cyanoethenyl]-2,6-dimethylphenoxy}pyrimidin-2-yl)amino]-2-[4-(methanesulfonyl)piperazin-1-yl]benzonitrile"         
XRB "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "5-[[4-[4-[(~{E})-2-cyanoethenyl]-2,6-dimethyl-phenoxy]pyrimidin-2-yl]amino]-2-(4-methylsulfonylpiperazin-1-yl)benzenecarbonitrile" 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
XRB "Create component" 2022-12-06 RCSB 
XRB "Initial release"  2023-10-18 RCSB 
# 
