data_IL7
# 
_chem_comp.id                                    IL7 
_chem_comp.name                                  "4-(7-azanyl-5,5-dimethyl-3-methylimino-benzo[b][1]benzosilin-10-yl)-N-[2-[2-(6-chloranylhexoxy)ethoxy]ethyl]-3-methyl-benzamide" 
_chem_comp.type                                  non-polymer 
_chem_comp.pdbx_type                             HETAIN 
_chem_comp.formula                               "C34 H44 Cl N3 O3 Si" 
_chem_comp.mon_nstd_parent_comp_id               ? 
_chem_comp.pdbx_synonyms                         "HaloTag with Me-TRaQ-G ligand" 
_chem_comp.pdbx_formal_charge                    0 
_chem_comp.pdbx_initial_date                     2022-03-31 
_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                        606.270 
_chem_comp.one_letter_code                       ? 
_chem_comp.three_letter_code                     IL7 
_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        7ZBA 
_chem_comp.pdbx_subcomponent_list                ? 
_chem_comp.pdbx_processing_site                  PDBE 
_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 
IL7 C10  C1  C  0 1 N N N N N N -22.934 -18.070 -20.970 6.250   0.797  0.280  C10  IL7 1  
IL7 C13  C2  C  0 1 N N N N N N -21.437 -17.182 -22.623 7.632   -1.173 0.136  C13  IL7 2  
IL7 C15  C3  C  0 1 Y N N N N N -23.620 -20.962 -17.521 1.905   2.184  -0.092 C15  IL7 3  
IL7 C17  C4  C  0 1 Y N N N N N -24.823 -21.152 -16.838 1.409   3.445  0.055  C17  IL7 4  
IL7 C20  C5  C  0 1 N N N N N N -20.372 -16.805 -24.859 8.956   -3.187 -0.023 C20  IL7 5  
IL7 C21  C6  C  0 1 N N N N N N -18.080 -23.208 -16.600 -0.242  -3.243 -1.327 C21  IL7 6  
IL7 C22  C7  C  0 1 N N N N N N -15.950 -23.235 -18.092 -2.121  -4.652 -0.678 C22  IL7 7  
IL7 C24  C8  C  0 1 N N N N N N -14.518 -26.669 -18.118 -4.429  -3.965 2.169  C24  IL7 8  
IL7 C26  C9  C  0 1 N N N N N N -14.815 -28.135 -20.808 -6.777  -1.106 1.706  C26  IL7 9  
IL7 C28  C10 C  0 1 N N N N N N -15.172 -30.657 -20.484 -8.502  0.448  0.783  C28  IL7 10 
IL7 C01  C11 C  0 1 N N N N N N -22.179 -19.855 -19.284 3.817   0.605  -0.094 C01  IL7 11 
IL7 C02  C12 C  0 1 Y N N N N N -20.653 -21.812 -19.149 2.654   -0.885 -1.713 C02  IL7 12 
IL7 C03  C13 C  0 1 Y N N N N N -21.055 -20.678 -18.613 2.772   -0.385 -0.411 C03  IL7 13 
IL7 C04  C14 C  0 1 Y N N N N N -19.593 -22.699 -18.499 1.678   -1.810 -2.008 C04  IL7 14 
IL7 C05  C15 C  0 1 Y N N N N N -20.512 -20.315 -17.234 1.898   -0.826 0.589  C05  IL7 15 
IL7 C06  C16 C  0 1 Y N N N N N -19.078 -22.342 -17.358 0.807   -2.250 -1.008 C06  IL7 16 
IL7 C07  C17 C  0 1 Y N N N N N -19.604 -21.082 -16.660 0.924   -1.751 0.292  C07  IL7 17 
IL7 C08  C18 C  0 1 N N N N N N -21.951 -18.907 -20.428 5.079   0.038  -0.014 C08  IL7 18 
IL7 C09  C19 C  0 1 N N N N N N -20.691 -18.863 -21.048 5.226   -1.359 -0.234 C09  IL7 19 
IL7 C11  C20 C  0 1 N N N N N N -20.458 -18.006 -22.120 6.433   -1.957 -0.167 C11  IL7 20 
IL7 C12  C21 C  0 1 N N N N N N -22.670 -17.232 -22.033 7.473   0.272  0.356  C12  IL7 21 
IL7 C14  C22 C  0 1 Y N N N N N -23.503 -20.037 -18.562 3.284   1.943  0.061  C14  IL7 22 
IL7 C16  C23 C  0 1 Y N N N N N -24.665 -19.328 -18.853 4.100   3.057  0.367  C16  IL7 23 
IL7 C18  C24 C  0 1 Y N N N N N -25.852 -19.524 -18.171 3.618   4.302  0.512  C18  IL7 24 
IL7 C19  C25 C  0 1 Y N N N N N -25.959 -20.439 -17.149 2.243   4.521  0.356  C19  IL7 25 
IL7 C23  C26 C  0 1 N N N N N N -14.842 -24.301 -18.180 -2.932  -4.959 0.582  C23  IL7 26 
IL7 C25  C27 C  0 1 N N N N N N -13.572 -26.746 -19.314 -5.133  -2.652 2.515  C25  IL7 27 
IL7 C27  C28 C  0 1 N N N N N N -14.822 -29.528 -21.451 -7.736  -0.854 0.541  C27  IL7 28 
IL7 C29  C29 C  0 1 N N N N N N -15.285 -31.953 -21.294 -9.461  0.700  -0.382 C29  IL7 29 
IL7 C30  C30 C  0 1 N N N N N N -15.510 -33.145 -20.376 -10.227 2.002  -0.139 C30  IL7 30 
IL7 C31  C31 C  0 1 N N N N N N -15.578 -34.412 -21.237 -11.186 2.254  -1.304 C31  IL7 31 
IL7 C32  C32 C  0 1 N N N N N N -25.976 -18.534 -21.550 6.908   3.617  -0.697 C32  IL7 32 
IL7 C33  C33 C  0 1 N N N N N N -25.102 -16.297 -19.575 6.491   3.108  2.266  C33  IL7 33 
IL7 C34  C34 C  0 1 N N N N N N -21.171 -22.226 -20.507 3.590   -0.407 -2.793 C34  IL7 34 
IL7 N01  N1  N  0 1 N N N N N N -16.699 -23.578 -16.902 -1.083  -3.667 -0.363 N01  IL7 35 
IL7 N02  N2  N  0 1 N N N N N N -27.205 -20.647 -16.433 1.715   5.798  0.500  N02  IL7 36 
IL7 N03  N3  N  0 1 N N N N N N -21.161 -16.305 -23.745 8.823   -1.746 0.205  N03  IL7 37 
IL7 O01  O1  O  0 1 N N N N N N -18.505 -23.598 -15.582 -0.344  -3.677 -2.457 O01  IL7 38 
IL7 O02  O2  O  0 1 N N N N N N -15.407 -25.586 -18.249 -3.636  -3.786 0.994  O02  IL7 39 
IL7 O03  O3  O  0 1 N N N N N N -13.642 -27.938 -20.067 -6.062  -2.322 1.480  O03  IL7 40 
IL7 SI01 SI1 SI 0 0 N N N N N N -24.711 -18.021 -20.247 5.931   2.639  0.552  SI01 IL7 41 
IL7 H07  H1  H  0 1 N N N N N N -22.757 -21.546 -17.237 1.238   1.367  -0.326 H07  IL7 42 
IL7 H08  H2  H  0 1 N N N N N N -24.864 -21.880 -16.042 0.349   3.615  -0.066 H08  IL7 43 
IL7 H11  H3  H  0 1 N N N N N N -20.261 -16.014 -25.615 8.360   -3.728 0.712  H11  IL7 44 
IL7 H12  H4  H  0 1 N N N N N N -19.378 -17.108 -24.497 8.605   -3.430 -1.026 H12  IL7 45 
IL7 H10  H5  H  0 1 N N N N N N -20.879 -17.672 -25.307 10.003  -3.475 0.075  H10  IL7 46 
IL7 H14  H6  H  0 1 N N N N N N -15.514 -22.229 -17.999 -1.655  -5.567 -1.043 H14  IL7 47 
IL7 H15  H7  H  0 1 N N N N N N -16.596 -23.274 -18.981 -2.782  -4.249 -1.446 H15  IL7 48 
IL7 H18  H8  H  0 1 N N N N N N -15.095 -27.603 -18.055 -3.787  -4.263 2.998  H18  IL7 49 
IL7 H19  H9  H  0 1 N N N N N N -13.927 -26.541 -17.199 -5.174  -4.741 1.990  H19  IL7 50 
IL7 H23  H10 H  0 1 N N N N N N -14.875 -27.372 -21.598 -6.071  -0.278 1.781  H23  IL7 51 
IL7 H22  H11 H  0 1 N N N N N N -15.684 -28.041 -20.140 -7.344  -1.185 2.633  H22  IL7 52 
IL7 H27  H12 H  0 1 N N N N N N -14.382 -30.758 -19.726 -9.069  0.369  1.711  H27  IL7 53 
IL7 H26  H13 H  0 1 N N N N N N -16.130 -30.441 -19.989 -7.797  1.276  0.859  H26  IL7 54 
IL7 H01  H15 H  0 1 N N N N N N -19.274 -23.612 -18.980 1.586   -2.197 -3.012 H01  IL7 55 
IL7 H02  H16 H  0 1 N N N N N N -20.870 -19.431 -16.728 1.989   -0.441 1.594  H02  IL7 56 
IL7 H03  H17 H  0 1 N N N N N N -19.226 -20.818 -15.684 0.250   -2.092 1.063  H03  IL7 57 
IL7 H04  H18 H  0 1 N N N N N N -19.896 -19.500 -20.690 4.353   -1.954 -0.458 H04  IL7 58 
IL7 H05  H19 H  0 1 N N N N N N -19.477 -17.988 -22.571 6.515   -3.021 -0.335 H05  IL7 59 
IL7 H06  H20 H  0 1 N N N N N N -23.459 -16.598 -22.410 8.327   0.893  0.582  H06  IL7 60 
IL7 H09  H21 H  0 1 N N N N N N -26.719 -18.943 -18.448 4.280   5.123  0.747  H09  IL7 61 
IL7 H16  H22 H  0 1 N N N N N N -14.202 -24.233 -17.288 -3.646  -5.755 0.370  H16  IL7 62 
IL7 H17  H23 H  0 1 N N N N N N -14.237 -24.122 -19.081 -2.259  -5.277 1.378  H17  IL7 63 
IL7 H21  H24 H  0 1 N N N N N N -12.543 -26.641 -18.940 -5.667  -2.764 3.459  H21  IL7 64 
IL7 H20  H25 H  0 1 N N N N N N -13.805 -25.907 -19.985 -4.394  -1.857 2.607  H20  IL7 65 
IL7 H24  H26 H  0 1 N N N N N N -15.561 -29.529 -22.266 -7.169  -0.775 -0.386 H24  IL7 66 
IL7 H25  H27 H  0 1 N N N N N N -13.821 -29.724 -21.863 -8.441  -1.682 0.465  H25  IL7 67 
IL7 H28  H28 H  0 1 N N N N N N -16.132 -31.870 -21.991 -8.894  0.779  -1.309 H28  IL7 68 
IL7 H29  H29 H  0 1 N N N N N N -14.356 -32.106 -21.862 -10.167 -0.128 -0.457 H29  IL7 69 
IL7 H31  H30 H  0 1 N N N N N N -14.678 -33.226 -19.661 -10.795 1.923  0.788  H31  IL7 70 
IL7 H30  H31 H  0 1 N N N N N N -16.454 -33.018 -19.827 -9.522  2.830  -0.064 H30  IL7 71 
IL7 H33  H32 H  0 1 N N N N N N -16.014 -35.217 -20.627 -10.619 2.333  -2.231 H33  IL7 72 
IL7 H32  H33 H  0 1 N N N N N N -16.234 -34.207 -22.096 -11.892 1.426  -1.380 H32  IL7 73 
IL7 H38  H35 H  0 1 N N N N N N -26.986 -18.499 -21.115 6.597   3.335  -1.703 H38  IL7 74 
IL7 H36  H36 H  0 1 N N N N N N -25.921 -17.845 -22.405 6.728   4.681  -0.546 H36  IL7 75 
IL7 H37  H37 H  0 1 N N N N N N -25.758 -19.557 -21.889 7.970   3.406  -0.573 H37  IL7 76 
IL7 H40  H38 H  0 1 N N N N N N -24.353 -16.019 -18.819 7.556   2.901  2.369  H40  IL7 77 
IL7 H39  H39 H  0 1 N N N N N N -25.078 -15.568 -20.399 6.310   4.170  2.429  H39  IL7 78 
IL7 H41  H40 H  0 1 N N N N N N -26.102 -16.300 -19.117 5.935   2.527  3.001  H41  IL7 79 
IL7 H42  H41 H  0 1 N N N N N N -20.529 -21.798 -21.291 4.470   -1.049 -2.821 H42  IL7 80 
IL7 H44  H42 H  0 1 N N N N N N -21.162 -23.323 -20.584 3.082   -0.444 -3.756 H44  IL7 81 
IL7 H43  H43 H  0 1 N N N N N N -22.200 -21.858 -20.635 3.895   0.618  -2.581 H43  IL7 82 
IL7 H13  H44 H  0 1 N N N N N N -16.222 -24.125 -16.215 -1.001  -3.321 0.539  H13  IL7 83 
IL7 H34  H45 H  0 1 N N N N N N -27.075 -21.349 -15.733 2.299   6.543  0.710  H34  IL7 84 
IL7 H35  H46 H  0 1 N N N N N N -27.486 -19.791 -15.998 0.762   5.944  0.391  H35  IL7 85 
IL7 CL1  CL1 CL 0 0 N Y N N N N -14.361 -34.852 -21.722 -12.089 3.789  -1.019 CL1  IL7 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 
IL7 C20  N03  SING N N 1  
IL7 N03  C13  DOUB N N 2  
IL7 C13  C11  SING N N 3  
IL7 C13  C12  SING N N 4  
IL7 C11  C09  DOUB N N 5  
IL7 C12  C10  DOUB N N 6  
IL7 C32  SI01 SING N N 7  
IL7 C27  C26  SING N N 8  
IL7 C27  C28  SING N N 9  
IL7 C29  C28  SING N N 10 
IL7 C29  C30  SING N N 11 
IL7 C31  C30  SING N N 12 
IL7 C09  C08  SING N N 13 
IL7 C10  C08  SING N N 14 
IL7 C10  SI01 SING N N 15 
IL7 C26  O03  SING N N 16 
IL7 C34  C02  SING N N 17 
IL7 C08  C01  DOUB N N 18 
IL7 SI01 C33  SING N N 19 
IL7 SI01 C16  SING N N 20 
IL7 O03  C25  SING N N 21 
IL7 C25  C24  SING N N 22 
IL7 C01  C03  SING N N 23 
IL7 C01  C14  SING N N 24 
IL7 C02  C03  DOUB Y N 25 
IL7 C02  C04  SING Y N 26 
IL7 C16  C14  SING Y N 27 
IL7 C16  C18  DOUB Y N 28 
IL7 C03  C05  SING Y N 29 
IL7 C14  C15  DOUB Y N 30 
IL7 C04  C06  DOUB Y N 31 
IL7 O02  C23  SING N N 32 
IL7 O02  C24  SING N N 33 
IL7 C23  C22  SING N N 34 
IL7 C18  C19  SING Y N 35 
IL7 C22  N01  SING N N 36 
IL7 C15  C17  SING Y N 37 
IL7 C06  C07  SING Y N 38 
IL7 C06  C21  SING N N 39 
IL7 C05  C07  DOUB Y N 40 
IL7 C19  C17  DOUB Y N 41 
IL7 C19  N02  SING N N 42 
IL7 N01  C21  SING N N 43 
IL7 C21  O01  DOUB N N 44 
IL7 C15  H07  SING N N 45 
IL7 C17  H08  SING N N 46 
IL7 C20  H11  SING N N 47 
IL7 C20  H12  SING N N 48 
IL7 C20  H10  SING N N 49 
IL7 C22  H14  SING N N 50 
IL7 C22  H15  SING N N 51 
IL7 C24  H18  SING N N 52 
IL7 C24  H19  SING N N 53 
IL7 C26  H23  SING N N 54 
IL7 C26  H22  SING N N 55 
IL7 C28  H27  SING N N 56 
IL7 C28  H26  SING N N 57 
IL7 C04  H01  SING N N 58 
IL7 C05  H02  SING N N 59 
IL7 C07  H03  SING N N 60 
IL7 C09  H04  SING N N 61 
IL7 C11  H05  SING N N 62 
IL7 C12  H06  SING N N 63 
IL7 C18  H09  SING N N 64 
IL7 C23  H16  SING N N 65 
IL7 C23  H17  SING N N 66 
IL7 C25  H21  SING N N 67 
IL7 C25  H20  SING N N 68 
IL7 C27  H24  SING N N 69 
IL7 C27  H25  SING N N 70 
IL7 C29  H28  SING N N 71 
IL7 C29  H29  SING N N 72 
IL7 C30  H31  SING N N 73 
IL7 C30  H30  SING N N 74 
IL7 C31  H33  SING N N 75 
IL7 C31  H32  SING N N 76 
IL7 C32  H38  SING N N 77 
IL7 C32  H36  SING N N 78 
IL7 C32  H37  SING N N 79 
IL7 C33  H40  SING N N 80 
IL7 C33  H39  SING N N 81 
IL7 C33  H41  SING N N 82 
IL7 C34  H42  SING N N 83 
IL7 C34  H44  SING N N 84 
IL7 C34  H43  SING N N 85 
IL7 N01  H13  SING N N 86 
IL7 N02  H34  SING N N 87 
IL7 N02  H35  SING N N 88 
IL7 C31  CL1  SING N N 89 
# 
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 
IL7 InChI            InChI                1.06  "InChI=1S/C34H44ClN3O3Si/c1-24-21-25(34(39)38-16-18-41-20-19-40-17-8-6-5-7-15-35)9-12-28(24)33-29-13-10-26(36)22-31(29)42(3,4)32-23-27(37-2)11-14-30(32)33/h9-14,21-23H,5-8,15-20,36H2,1-4H3,(H,38,39)/b37-27+" 
IL7 InChIKey         InChI                1.06  JCDPTWLYDNGHLA-NXEFEZKASA-N                                                                                                                                                                                     
IL7 SMILES_CANONICAL CACTVS               3.385 "CN=C1C=CC2=C(c3ccc(cc3C)C(=O)NCCOCCOCCCCCCCl)c4ccc(N)cc4[Si](C)(C)C2=C1"                                                                                                                                       
IL7 SMILES           CACTVS               3.385 "CN=C1C=CC2=C(c3ccc(cc3C)C(=O)NCCOCCOCCCCCCCl)c4ccc(N)cc4[Si](C)(C)C2=C1"                                                                                                                                       
IL7 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1cc(ccc1C2=C3C=CC(=NC)C=C3[Si](c4c2ccc(c4)N)(C)C)C(=O)NCCOCCOCCCCCCCl"                                                                                                                                       
IL7 SMILES           "OpenEye OEToolkits" 2.0.7 "Cc1cc(ccc1C2=C3C=CC(=NC)C=C3[Si](c4c2ccc(c4)N)(C)C)C(=O)NCCOCCOCCCCCCCl"                                                                                                                                       
# 
_pdbx_chem_comp_identifier.comp_id           IL7 
_pdbx_chem_comp_identifier.type              "SYSTEMATIC NAME" 
_pdbx_chem_comp_identifier.program           "OpenEye OEToolkits" 
_pdbx_chem_comp_identifier.program_version   2.0.7 
_pdbx_chem_comp_identifier.identifier        "4-(7-azanyl-5,5-dimethyl-3-methylimino-benzo[b][1]benzosilin-10-yl)-~{N}-[2-[2-(6-chloranylhexoxy)ethoxy]ethyl]-3-methyl-benzamide" 
# 
_pdbx_chem_comp_synonyms.ordinal      1 
_pdbx_chem_comp_synonyms.comp_id      IL7 
_pdbx_chem_comp_synonyms.name         "HaloTag with Me-TRaQ-G ligand" 
_pdbx_chem_comp_synonyms.provenance   AUTHOR 
_pdbx_chem_comp_synonyms.type         ? 
# 
loop_
_pdbx_chem_comp_audit.comp_id 
_pdbx_chem_comp_audit.action_type 
_pdbx_chem_comp_audit.date 
_pdbx_chem_comp_audit.processing_site 
IL7 "Create component"         2022-03-31 PDBE 
IL7 "Modify leaving atom flag" 2022-03-31 PDBE 
IL7 "Modify formula"           2022-03-31 PDBE 
IL7 "Modify descriptor"        2022-08-22 RCSB 
IL7 "Initial release"          2023-02-01 RCSB 
IL7 "Modify PCM"               2024-09-27 PDBE 
# 
_pdbx_chem_comp_pcm.pcm_id                             1 
_pdbx_chem_comp_pcm.comp_id                            IL7 
_pdbx_chem_comp_pcm.modified_residue_id                ASP 
_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               C31 
_pdbx_chem_comp_pcm.modified_residue_id_linking_atom   OD2 
_pdbx_chem_comp_pcm.uniprot_specific_ptm_accession     ? 
_pdbx_chem_comp_pcm.uniprot_generic_ptm_accession      ? 
# 
