data_YA3 # _chem_comp.id YA3 _chem_comp.name "2-((S)-4-(4-chlorophenyl)-2,3,9-trimethyl-6H-thieno[3,2-f][1,2,4]triazolo[4,3-a][1,4]diazepin-6-yl)-N-((1-(4-(2-((2-(2,6-dioxopiperidin-3-yl)-1,3-dioxoisoindolin-4-yl)amino)acetamido)butyl)-1H-1,2,3-triazol-4-yl)methyl)acetamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C41 H41 Cl N12 O6 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2020-05-11 _chem_comp.pdbx_modified_date 2021-11-12 _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 865.359 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YA3 _chem_comp.pdbx_model_coordinates_details ? _chem_comp.pdbx_model_coordinates_missing_flag Y _chem_comp.pdbx_ideal_coordinates_details Corina _chem_comp.pdbx_ideal_coordinates_missing_flag N _chem_comp.pdbx_model_coordinates_db_code 6WWB _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 YA3 C01 C1 C 0 1 N N N 20.868 69.729 39.291 8.203 0.374 -4.479 C01 YA3 1 YA3 C02 C2 C 0 1 Y N N 19.713 68.782 39.519 8.699 -0.108 -3.140 C02 YA3 2 YA3 C03 C3 C 0 1 Y N N 19.493 68.135 40.779 8.592 0.569 -2.010 C03 YA3 3 YA3 C04 C4 C 0 1 N N N 20.361 68.269 42.009 7.944 1.927 -1.924 C04 YA3 4 YA3 C05 C5 C 0 1 Y N N 18.263 67.269 40.660 9.156 -0.115 -0.858 C05 YA3 5 YA3 C06 C6 C 0 1 N N N 17.736 66.470 41.828 9.206 0.476 0.495 C06 YA3 6 YA3 C07 C7 C 0 1 Y N N 17.541 67.127 43.169 9.456 1.933 0.584 C07 YA3 7 YA3 C08 C8 C 0 1 Y N N 17.339 68.485 43.275 8.825 2.692 1.570 C08 YA3 8 YA3 C09 C9 C 0 1 Y N N 17.148 69.045 44.515 9.062 4.049 1.649 C09 YA3 9 YA3 C10 C10 C 0 1 Y N N 17.174 68.232 45.617 9.923 4.658 0.751 C10 YA3 10 YA3 C12 C11 C 0 1 Y N N 17.378 66.874 45.529 10.551 3.909 -0.230 C12 YA3 11 YA3 C13 C12 C 0 1 Y N N 17.566 66.316 44.284 10.326 2.550 -0.314 C13 YA3 12 YA3 C15 C13 C 0 1 N N S 17.308 64.573 40.345 8.699 -1.584 1.657 C15 YA3 13 YA3 C16 C14 C 0 1 N N N 16.986 63.111 40.497 7.387 -1.812 0.904 C16 YA3 14 YA3 C17 C15 C 0 1 N N N 18.033 62.460 41.391 6.268 -1.100 1.618 C17 YA3 15 YA3 C19 C16 C 0 1 N N N 18.617 60.632 42.984 3.924 -0.468 1.827 C19 YA3 16 YA3 C20 C17 C 0 1 Y N N 18.850 61.556 44.185 2.631 -0.692 1.084 C20 YA3 17 YA3 C21 C18 C 0 1 Y N N 20.038 62.192 44.549 1.705 -1.646 1.341 C21 YA3 18 YA3 C23 C19 C 0 1 N N N 20.783 63.719 46.344 -0.500 -2.272 0.318 C23 YA3 19 YA3 C24 C20 C 0 1 N N N 20.531 65.197 46.024 -1.722 -1.354 0.377 C24 YA3 20 YA3 C25 C21 C 0 1 N N N 21.579 65.823 45.091 -2.996 -2.193 0.260 C25 YA3 21 YA3 C26 C22 C 0 1 N N N 22.288 67.035 45.709 -4.219 -1.274 0.320 C26 YA3 22 YA3 C54 C23 C 0 1 Y N N 16.367 65.324 39.385 9.797 -2.387 1.011 C54 YA3 23 YA3 C57 C24 C 0 1 Y N N 15.564 66.925 38.172 11.220 -3.136 -0.453 C57 YA3 24 YA3 C58 C25 C 0 1 N N N 15.377 68.254 37.491 12.016 -3.353 -1.714 C58 YA3 25 YA3 C60 C26 C 0 1 Y N N 17.685 67.362 39.364 9.658 -1.354 -1.194 C60 YA3 26 YA3 N14 N1 N 0 1 N N N 17.164 65.231 41.618 9.052 -0.163 1.609 N14 YA3 27 YA3 N18 N2 N 0 1 N N N 17.642 61.276 42.108 5.012 -1.161 1.132 N18 YA3 28 YA3 N22 N3 N 0 1 Y N N 19.803 62.896 45.640 0.720 -1.469 0.430 N22 YA3 29 YA3 N51 N4 N 0 1 Y N N 18.509 62.740 46.001 1.040 -0.474 -0.322 N51 YA3 30 YA3 N52 N5 N 0 1 Y N N 17.937 61.897 45.088 2.171 0.015 0.046 N52 YA3 31 YA3 N55 N6 N 0 1 Y N N 15.243 64.863 38.836 10.524 -3.324 1.548 N55 YA3 32 YA3 N56 N7 N 0 1 Y N N 14.770 65.884 38.068 11.370 -3.768 0.684 N56 YA3 33 YA3 N59 N8 N 0 1 Y N N 16.593 66.584 39.028 10.212 -2.249 -0.276 N59 YA3 34 YA3 O53 O1 O 0 1 N N N 19.151 62.892 41.483 6.497 -0.472 2.630 O53 YA3 35 YA3 S61 S1 S 0 1 Y N N 18.569 68.395 38.393 9.491 -1.648 -2.866 S61 YA3 36 YA3 CL11 CL1 CL 0 0 N N N 16.936 68.937 47.204 10.216 6.366 0.856 CL11 YA3 37 YA3 H013 H1 H 0 0 N N N 20.827 70.118 38.263 8.994 0.932 -4.980 H013 YA3 38 YA3 H011 H2 H 0 0 N N N 20.802 70.566 40.002 7.918 -0.482 -5.091 H011 YA3 39 YA3 H012 H3 H 0 0 N N N 21.817 69.193 39.443 7.338 1.021 -4.333 H012 YA3 40 YA3 H042 H4 H 0 0 N N N 19.993 69.099 42.629 6.866 1.809 -1.816 H042 YA3 41 YA3 H041 H5 H 0 0 N N N 20.323 67.334 42.588 8.339 2.464 -1.061 H041 YA3 42 YA3 H043 H6 H 0 0 N N N 21.399 68.471 41.705 8.159 2.490 -2.831 H043 YA3 43 YA3 H081 H7 H 0 0 N N N 17.331 69.105 42.391 8.153 2.218 2.270 H081 YA3 44 YA3 H091 H8 H 0 0 N N N 16.980 70.107 44.619 8.575 4.637 2.412 H091 YA3 45 YA3 H121 H9 H 0 0 N N N 17.390 66.259 46.417 11.221 4.389 -0.928 H121 YA3 46 YA3 H131 H10 H 0 0 N N N 17.731 65.254 44.182 10.820 1.967 -1.077 H131 YA3 47 YA3 H151 H11 H 0 0 N N N 18.341 64.679 39.981 8.582 -1.895 2.695 H151 YA3 48 YA3 H161 H12 H 0 0 N N N 15.991 62.998 40.953 7.478 -1.422 -0.110 H161 YA3 49 YA3 H162 H13 H 0 0 N N N 16.993 62.628 39.509 7.172 -2.880 0.864 H162 YA3 50 YA3 H191 H14 H 0 0 N N N 18.228 59.662 43.328 4.139 0.600 1.866 H191 YA3 51 YA3 H192 H15 H 0 0 N N N 19.562 60.477 42.442 3.833 -0.858 2.840 H192 YA3 52 YA3 H211 H16 H 0 0 N N N 20.982 62.121 44.030 1.745 -2.396 2.116 H211 YA3 53 YA3 H231 H17 H 0 0 N N N 20.688 63.557 47.428 -0.541 -2.986 1.140 H231 YA3 54 YA3 H232 H18 H 0 0 N N N 21.797 63.441 46.019 -0.495 -2.810 -0.630 H232 YA3 55 YA3 H242 H19 H 0 0 N N N 20.529 65.760 46.969 -1.727 -0.816 1.325 H242 YA3 56 YA3 H241 H20 H 0 0 N N N 19.545 65.284 45.544 -1.680 -0.640 -0.445 H241 YA3 57 YA3 H252 H21 H 0 0 N N N 21.077 66.145 44.167 -2.991 -2.731 -0.688 H252 YA3 58 YA3 H251 H22 H 0 0 N N N 22.334 65.060 44.851 -3.038 -2.907 1.083 H251 YA3 59 YA3 H261 H23 H 0 0 N N N 22.116 68.082 45.418 -4.223 -0.737 1.268 H261 YA3 60 YA3 H262 H24 H 0 0 N N N 22.925 67.003 46.605 -4.177 -0.560 -0.503 H1 YA3 61 YA3 H581 H26 H 0 0 N N N 14.462 68.229 36.881 12.885 -2.696 -1.713 H581 YA3 62 YA3 H582 H27 H 0 0 N N N 15.290 69.046 38.250 12.345 -4.391 -1.762 H582 YA3 63 YA3 H583 H28 H 0 0 N N N 16.243 68.459 36.844 11.393 -3.129 -2.580 H583 YA3 64 YA3 H181 H29 H 0 0 N N N 16.720 60.901 42.009 4.829 -1.663 0.323 H181 YA3 65 YA3 N1 N9 N 0 1 N N N ? ? ? -5.439 -2.078 0.208 N1 YA3 66 YA3 C2 C27 C 0 1 N N N ? ? ? -6.645 -1.478 0.236 C2 YA3 67 YA3 C3 C28 C 0 1 N N N ? ? ? -7.900 -2.304 0.121 C3 YA3 68 YA3 N2 N10 N 0 1 N N N ? ? ? -9.071 -1.425 0.178 N2 YA3 69 YA3 C5 C29 C 0 1 Y N N ? ? ? -10.347 -1.962 0.091 C5 YA3 70 YA3 O1 O2 O 0 1 N N N ? ? ? -6.721 -0.273 0.354 O1 YA3 71 YA3 C1 C30 C 0 1 Y N N ? ? ? -10.521 -3.340 -0.051 C1 YA3 72 YA3 C4 C31 C 0 1 Y N N ? ? ? -11.788 -3.877 -0.137 C4 YA3 73 YA3 C6 C32 C 0 1 Y N N ? ? ? -12.908 -3.057 -0.085 C6 YA3 74 YA3 C7 C33 C 0 1 Y N N ? ? ? -12.757 -1.689 0.055 C7 YA3 75 YA3 C8 C34 C 0 1 Y N N ? ? ? -11.464 -1.131 0.150 C8 YA3 76 YA3 C9 C35 C 0 1 N N N ? ? ? -11.660 0.322 0.289 C9 YA3 77 YA3 C11 C36 C 0 1 N N N ? ? ? -13.694 -0.550 0.144 C11 YA3 78 YA3 N3 N11 N 0 1 N N N ? ? ? -12.979 0.582 0.274 N3 YA3 79 YA3 O3 O3 O 0 1 N N N ? ? ? -10.776 1.149 0.398 O3 YA3 80 YA3 O2 O4 O 0 1 N N N ? ? ? -14.906 -0.624 0.105 O2 YA3 81 YA3 C14 C37 C 0 1 N N N ? ? ? -13.562 1.921 0.389 C14 YA3 82 YA3 C18 C38 C 0 1 N N N ? ? ? -12.471 2.923 0.661 C18 YA3 83 YA3 N4 N12 N 0 1 N N N ? ? ? -11.839 3.554 -0.340 N4 YA3 84 YA3 C27 C39 C 0 1 N N N ? ? ? -12.142 3.346 -1.630 C27 YA3 85 YA3 C28 C40 C 0 1 N N N ? ? ? -13.214 2.369 -2.034 C28 YA3 86 YA3 C29 C41 C 0 1 N N N ? ? ? -14.266 2.288 -0.922 C29 YA3 87 YA3 O5 O5 O 0 1 N N N ? ? ? -12.157 3.163 1.807 O5 YA3 88 YA3 O4 O6 O 0 1 N N N ? ? ? -11.540 3.957 -2.487 O4 YA3 89 YA3 H2 H42 H 0 1 N N N ? ? ? -5.378 -3.041 0.114 H2 YA3 90 YA3 H3 H30 H 0 1 N N N ? ? ? -7.896 -2.842 -0.827 H3 YA3 91 YA3 H4 H31 H 0 1 N N N ? ? ? -7.942 -3.018 0.944 H4 YA3 92 YA3 H5 H32 H 0 1 N N N ? ? ? -8.953 -0.467 0.276 H5 YA3 93 YA3 H6 H33 H 0 1 N N N ? ? ? -9.659 -3.990 -0.093 H6 YA3 94 YA3 H7 H34 H 0 1 N N N ? ? ? -11.910 -4.944 -0.247 H7 YA3 95 YA3 H8 H35 H 0 1 N N N ? ? ? -13.896 -3.488 -0.154 H8 YA3 96 YA3 H9 H36 H 0 1 N N N ? ? ? -14.283 1.936 1.206 H9 YA3 97 YA3 H10 H37 H 0 1 N N N ? ? ? -11.137 4.186 -0.122 H10 YA3 98 YA3 H11 H38 H 0 1 N N N ? ? ? -13.685 2.707 -2.957 H11 YA3 99 YA3 H12 H39 H 0 1 N N N ? ? ? -12.770 1.385 -2.189 H12 YA3 100 YA3 H13 H40 H 0 1 N N N ? ? ? -15.001 1.523 -1.169 H13 YA3 101 YA3 H14 H41 H 0 1 N N N ? ? ? -14.760 3.254 -0.815 H14 YA3 102 # # 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 YA3 C58 C57 SING N N 1 YA3 N56 C57 DOUB Y N 2 YA3 N56 N55 SING Y N 3 YA3 C57 N59 SING Y N 4 YA3 S61 C60 SING Y N 5 YA3 S61 C02 SING Y N 6 YA3 N55 C54 DOUB Y N 7 YA3 N59 C60 SING N N 8 YA3 N59 C54 SING Y N 9 YA3 C01 C02 SING N N 10 YA3 C60 C05 DOUB Y N 11 YA3 C54 C15 SING N N 12 YA3 C02 C03 DOUB Y N 13 YA3 C15 C16 SING N N 14 YA3 C15 N14 SING N N 15 YA3 C16 C17 SING N N 16 YA3 C05 C03 SING Y N 17 YA3 C05 C06 SING N N 18 YA3 C03 C04 SING N N 19 YA3 C17 O53 DOUB N N 20 YA3 C17 N18 SING N N 21 YA3 N14 C06 DOUB N N 22 YA3 C06 C07 SING N N 23 YA3 N18 C19 SING N N 24 YA3 C19 C20 SING N N 25 YA3 C07 C08 DOUB Y N 26 YA3 C07 C13 SING Y N 27 YA3 C08 C09 SING Y N 28 YA3 C20 C21 DOUB Y N 29 YA3 C20 N52 SING Y N 30 YA3 C13 C12 DOUB Y N 31 YA3 C09 C10 DOUB Y N 32 YA3 C21 N22 SING Y N 33 YA3 N52 N51 DOUB Y N 34 YA3 C25 C26 SING N N 35 YA3 C25 C24 SING N N 36 YA3 C12 C10 SING Y N 37 YA3 C10 CL11 SING N N 38 YA3 N22 N51 SING Y N 39 YA3 N22 C23 SING N N 40 YA3 C24 C23 SING N N 41 YA3 C01 H013 SING N N 42 YA3 C01 H011 SING N N 43 YA3 C01 H012 SING N N 44 YA3 C04 H042 SING N N 45 YA3 C04 H041 SING N N 46 YA3 C04 H043 SING N N 47 YA3 C08 H081 SING N N 48 YA3 C09 H091 SING N N 49 YA3 C12 H121 SING N N 50 YA3 C13 H131 SING N N 51 YA3 C15 H151 SING N N 52 YA3 C16 H161 SING N N 53 YA3 C16 H162 SING N N 54 YA3 C19 H191 SING N N 55 YA3 C19 H192 SING N N 56 YA3 C21 H211 SING N N 57 YA3 C23 H231 SING N N 58 YA3 C23 H232 SING N N 59 YA3 C24 H242 SING N N 60 YA3 C24 H241 SING N N 61 YA3 C25 H252 SING N N 62 YA3 C25 H251 SING N N 63 YA3 C26 H261 SING N N 64 YA3 C26 H262 SING N N 65 YA3 C58 H581 SING N N 66 YA3 C58 H582 SING N N 67 YA3 C58 H583 SING N N 68 YA3 N18 H181 SING N N 69 YA3 C26 N1 SING N N 70 YA3 N1 C2 SING N N 71 YA3 C2 C3 SING N N 72 YA3 C3 N2 SING N N 73 YA3 N2 C5 SING N N 74 YA3 C2 O1 DOUB N N 75 YA3 C5 C1 SING Y N 76 YA3 C1 C4 DOUB Y N 77 YA3 C4 C6 SING Y N 78 YA3 C6 C7 DOUB Y N 79 YA3 C7 C8 SING Y N 80 YA3 C8 C5 DOUB Y N 81 YA3 C8 C9 SING N N 82 YA3 C7 C11 SING N N 83 YA3 C9 N3 SING N N 84 YA3 C11 N3 SING N N 85 YA3 C9 O3 DOUB N N 86 YA3 C11 O2 DOUB N N 87 YA3 N3 C14 SING N N 88 YA3 C14 C18 SING N N 89 YA3 C18 N4 SING N N 90 YA3 N4 C27 SING N N 91 YA3 C27 C28 SING N N 92 YA3 C28 C29 SING N N 93 YA3 C29 C14 SING N N 94 YA3 C18 O5 DOUB N N 95 YA3 C27 O4 DOUB N N 96 YA3 N1 H2 SING N N 97 YA3 C3 H3 SING N N 98 YA3 C3 H4 SING N N 99 YA3 N2 H5 SING N N 100 YA3 C1 H6 SING N N 101 YA3 C4 H7 SING N N 102 YA3 C6 H8 SING N N 103 YA3 C14 H9 SING N N 104 YA3 N4 H10 SING N N 105 YA3 C28 H11 SING N N 106 YA3 C28 H12 SING N N 107 YA3 C29 H13 SING N N 108 YA3 C29 H14 SING N N 109 # # 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 YA3 SMILES ACDLabs 12.01 "Cc8c(C)c7C(c1ccc(Cl)cc1)=NC(CC(=O)NCc5cn(CCCCNC(CNc2cccc3c2C(N(C3=O)C4C(NC(CC4)=O)=O)=O)=O)nn5)c6nnc(n6c7s8)C" YA3 InChI InChI 1.03 "InChI=1S/C41H41ClN12O6S/c1-21-22(2)61-41-34(21)36(24-9-11-25(42)12-10-24)46-29(37-50-48-23(3)53(37)41)17-32(56)45-18-26-20-52(51-49-26)16-5-4-15-43-33(57)19-44-28-8-6-7-27-35(28)40(60)54(39(27)59)30-13-14-31(55)47-38(30)58/h6-12,20,29-30,44H,4-5,13-19H2,1-3H3,(H,43,57)(H,45,56)(H,47,55,58)/t29-,30?/m0/s1" YA3 InChIKey InChI 1.03 RXKCXGDDGPGXLS-UFXYQILXSA-N YA3 SMILES_CANONICAL CACTVS 3.385 "Cc1sc2n3c(C)nnc3[C@H](CC(=O)NCc4cn(CCCCNC(=O)CNc5cccc6C(=O)N(C7CCC(=O)NC7=O)C(=O)c56)nn4)N=C(c8ccc(Cl)cc8)c2c1C" YA3 SMILES CACTVS 3.385 "Cc1sc2n3c(C)nnc3[CH](CC(=O)NCc4cn(CCCCNC(=O)CNc5cccc6C(=O)N(C7CCC(=O)NC7=O)C(=O)c56)nn4)N=C(c8ccc(Cl)cc8)c2c1C" YA3 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1c(sc-2c1C(=N[C@H](c3n2c(nn3)C)CC(=O)NCc4cn(nn4)CCCCNC(=O)CNc5cccc6c5C(=O)N(C6=O)C7CCC(=O)NC7=O)c8ccc(cc8)Cl)C" YA3 SMILES "OpenEye OEToolkits" 2.0.7 "Cc1c(sc-2c1C(=NC(c3n2c(nn3)C)CC(=O)NCc4cn(nn4)CCCCNC(=O)CNc5cccc6c5C(=O)N(C6=O)C7CCC(=O)NC7=O)c8ccc(cc8)Cl)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 YA3 "SYSTEMATIC NAME" ACDLabs 12.01 "N-(4-{4-[({[(6S)-4-(4-chlorophenyl)-2,3,9-trimethyl-6H-thieno[3,2-f][1,2,4]triazolo[4,3-a][1,4]diazepin-6-yl]acetyl}amino)methyl]-1H-1,2,3-triazol-1-yl}butyl)-N~2~-[2-(2,6-dioxopiperidin-3-yl)-1,3-dioxo-2,3-dihydro-1H-isoindol-4-yl]glycinamide" YA3 "SYSTEMATIC NAME" "OpenEye OEToolkits" 2.0.7 "~{N}-[[1-[4-[2-[[2-[2,6-bis(oxidanylidene)piperidin-3-yl]-1,3-bis(oxidanylidene)isoindol-4-yl]amino]ethanoylamino]butyl]-1,2,3-triazol-4-yl]methyl]-2-[(9~{S})-7-(4-chlorophenyl)-4,5,13-trimethyl-3-thia-1,8,11,12-tetrazatricyclo[8.3.0.0^{2,6}]trideca-2(6),4,7,10,12-pentaen-9-yl]ethanamide" # # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YA3 "Create component" 2020-05-11 RCSB YA3 "Modify formula" 2020-05-11 RCSB YA3 "Modify atom id" 2020-05-11 RCSB YA3 "Modify name" 2020-05-13 RCSB YA3 "Initial release" 2021-11-17 RCSB ##