data_I7M # _chem_comp.id I7M _chem_comp.name "3-[(1~{S})-1-[6-methoxy-3-methyl-5-[[[(2~{S})-5-oxidanylidenepyrrolidin-2-yl]methylamino]methyl]pyridin-2-yl]oxy-2,3-dihydro-1~{H}-inden-4-yl]-2-methyl-~{N}-[5-[[[(2~{S})-5-oxidanylidenepyrrolidin-2-yl]methylamino]methyl]pyridin-2-yl]benzamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C41 H47 N7 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-07-27 _chem_comp.pdbx_modified_date 2023-12-29 _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 717.856 _chem_comp.one_letter_code ? _chem_comp.three_letter_code I7M _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 8K5N _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBC # 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 I7M C1 C1 C 0 1 Y N N N N N -15.051 22.188 -17.526 0.387 4.668 -0.114 C1 I7M 1 I7M C2 C2 C 0 1 Y N N N N N -14.994 23.284 -18.379 0.765 5.821 0.568 C2 I7M 2 I7M O3 O1 O 0 1 N N N N N N -19.205 9.402 -19.235 8.592 -4.934 -3.348 O3 I7M 3 I7M C4 C3 C 0 1 Y N N N N N -16.658 22.403 -19.913 2.835 4.781 1.165 C4 I7M 4 I7M C5 C4 C 0 1 Y N N N N N -16.716 21.200 -18.986 2.464 3.626 0.493 C5 I7M 5 I7M C6 C5 C 0 1 Y N N N N N -15.936 21.078 -17.863 1.243 3.565 -0.147 C6 I7M 6 I7M C10 C6 C 0 1 Y N N N N N -18.208 18.591 -20.900 4.933 1.178 1.475 C10 I7M 7 I7M C11 C7 C 0 1 Y N N N N N -18.105 18.172 -22.248 5.549 0.746 2.641 C11 I7M 8 I7M C12 C8 C 0 1 Y N N N N N -18.806 17.059 -22.610 6.715 0.003 2.555 C12 I7M 9 I7M C13 C9 C 0 1 Y N N N N N -19.575 16.403 -21.685 7.228 -0.283 1.300 C13 I7M 10 I7M C14 C10 C 0 1 Y N N N N N -19.671 16.834 -20.392 6.561 0.181 0.174 C14 I7M 11 I7M C15 C11 C 0 1 N N N N N N -20.412 16.600 -18.203 6.324 0.410 -2.178 C15 I7M 12 I7M C16 C12 C 0 1 N N N N N N -20.371 15.142 -22.029 8.494 -1.087 1.158 C16 I7M 13 I7M C17 C13 C 0 1 N N N N N N -20.300 12.787 -21.726 9.376 -3.264 0.570 C17 I7M 14 I7M C18 C14 C 0 1 N N S N N N -19.108 11.827 -21.779 8.991 -4.672 0.111 C18 I7M 15 I7M C19 C15 C 0 1 N N N N N N -19.474 10.592 -22.585 10.257 -5.488 -0.232 C19 I7M 16 I7M C20 C16 C 0 1 N N N N N N -19.980 9.610 -21.539 10.387 -5.243 -1.753 C20 I7M 17 I7M C21 C17 C 0 1 N N N N N N -19.305 10.049 -20.227 8.979 -4.918 -2.198 C21 I7M 18 I7M C22 C18 C 0 1 Y N N N N N -14.130 22.168 -16.324 -0.928 4.607 -0.800 C22 I7M 19 I7M C23 C19 C 0 1 Y N N N N N -13.124 21.213 -16.352 -1.186 5.441 -1.887 C23 I7M 20 I7M C24 C20 C 0 1 Y N N N N N -12.187 21.163 -15.342 -2.409 5.387 -2.528 C24 I7M 21 I7M C25 C21 C 0 1 Y N N N N N -12.271 22.087 -14.306 -3.383 4.509 -2.096 C25 I7M 22 I7M C26 C22 C 0 1 Y N N N N N -13.284 23.036 -14.268 -3.136 3.668 -1.008 C26 I7M 23 I7M C27 C23 C 0 1 Y N N N N N -14.222 23.121 -15.304 -1.901 3.716 -0.363 C27 I7M 24 I7M C28 C24 C 0 1 N N N N N N -13.252 24.048 -13.133 -4.179 2.728 -0.547 C28 I7M 25 I7M C29 C25 C 0 1 Y N N N N N -14.354 25.542 -11.361 -6.336 1.764 -0.771 C29 I7M 26 I7M C3 C26 C 0 1 Y N N N N N -15.771 23.453 -19.564 1.988 5.872 1.204 C3 I7M 27 I7M C30 C27 C 0 1 Y N N N N N -13.179 26.167 -10.947 -7.568 1.742 -1.415 C30 I7M 28 I7M C31 C28 C 0 1 Y N N N N N -13.229 27.146 -10.000 -8.566 0.915 -0.931 C31 I7M 29 I7M C32 C29 C 0 1 Y N N N N N -14.438 27.522 -9.486 -8.297 0.134 0.185 C32 I7M 30 I7M C33 C30 C 0 1 Y N N N N N -15.605 26.913 -9.906 -7.050 0.206 0.775 C33 I7M 31 I7M C34 C31 C 0 1 N N N N N N -14.545 28.630 -8.437 -9.353 -0.781 0.747 C34 I7M 32 I7M C35 C32 C 0 1 N N N N N N -13.209 30.454 -9.293 -10.266 -3.021 0.632 C35 I7M 33 I7M C36 C33 C 0 1 N N S N N N -13.293 31.850 -9.936 -10.126 -4.380 -0.056 C36 I7M 34 I7M C37 C34 C 0 1 N N N N N N -13.089 32.947 -8.901 -11.104 -5.400 0.570 C37 I7M 35 I7M C38 C35 C 0 1 N N N N N N -14.365 33.750 -8.849 -10.279 -6.706 0.508 C38 I7M 36 I7M C39 C36 C 0 1 N N N N N N -15.308 33.161 -9.911 -8.841 -6.237 0.488 C39 I7M 37 I7M C7 C37 C 0 1 N N N N N N -16.223 19.688 -17.129 1.074 2.211 -0.802 C7 I7M 38 I7M C8 C38 C 0 1 N N N N N N -16.917 18.960 -18.204 2.125 1.304 -0.128 C8 I7M 39 I7M C9 C39 C 0 1 N N S N N N -17.555 19.938 -19.101 3.202 2.317 0.313 C9 I7M 40 I7M CL1 C40 C 0 1 N N N N N N -17.226 18.921 -23.278 4.956 1.081 3.985 CL1 I7M 41 I7M CL2 C41 C 0 1 N N N N N N -15.319 24.187 -15.286 -1.625 2.808 0.808 CL2 I7M 42 I7M N1 N1 N 0 1 Y N N N N N -18.988 17.936 -19.996 5.446 0.883 0.291 N1 I7M 43 I7M N2 N2 N 0 1 N N N N N N -19.916 14.065 -21.142 8.163 -2.449 0.718 N2 I7M 44 I7M N3 N3 N 0 1 N N N N N N -18.790 11.411 -20.423 8.218 -4.607 -1.135 N3 I7M 45 I7M N4 N4 N 0 1 N N N N N N -14.410 24.508 -12.401 -5.325 2.597 -1.243 N4 I7M 46 I7M N5 N5 N 0 1 Y N N N N N -15.549 25.941 -10.843 -6.118 1.005 0.292 N5 I7M 47 I7M N6 N6 N 0 1 N N N N N N -14.559 29.914 -9.128 -9.249 -2.100 0.107 N6 I7M 48 I7M N7 N7 N 0 1 N N N N N N -14.625 32.014 -10.549 -8.785 -4.931 0.175 N7 I7M 49 I7M O1 O2 O 0 1 N N N N N N -17.476 19.708 -20.499 3.791 1.906 1.549 O1 I7M 50 I7M O2 O3 O 0 1 N N N N N N -20.481 16.100 -19.511 7.055 -0.094 -1.059 O2 I7M 51 I7M O4 O4 O 0 1 N N N N N N -16.400 33.548 -10.183 -7.879 -6.937 0.721 O4 I7M 52 I7M O5 O5 O 0 1 N N N N N N -12.186 24.513 -12.904 -4.002 2.073 0.462 O5 I7M 53 I7M H1 H1 H 0 1 N N N N N N -14.304 24.074 -18.123 0.102 6.674 0.598 H1 I7M 54 I7M H2 H2 H 0 1 N N N N N N -17.268 22.456 -20.802 3.791 4.826 1.666 H2 I7M 55 I7M H3 H3 H 0 1 N N N N N N -18.755 16.695 -23.626 7.215 -0.345 3.447 H3 I7M 56 I7M H4 H4 H 0 1 N N N N N N -21.058 16.000 -17.546 6.826 0.120 -3.101 H4 I7M 57 I7M H5 H5 H 0 1 N N N N N N -19.374 16.546 -17.844 5.315 -0.001 -2.168 H5 I7M 58 I7M H6 H6 H 0 1 N N N N N N -20.750 17.647 -18.192 6.274 1.498 -2.119 H6 I7M 59 I7M H7 H7 H 0 1 N N N N N N -21.445 15.324 -21.875 9.144 -0.615 0.421 H7 I7M 60 I7M H8 H8 H 0 1 N N N N N N -20.193 14.862 -23.078 9.006 -1.130 2.119 H8 I7M 61 I7M H9 H9 H 0 1 N N N N N N -20.672 12.956 -22.747 9.894 -3.322 1.527 H9 I7M 62 I7M H10 H10 H 0 1 N N N N N N -21.097 12.337 -21.115 10.031 -2.807 -0.172 H10 I7M 63 I7M H11 H11 H 0 1 N N N N N N -18.248 12.332 -22.243 8.415 -5.176 0.887 H11 I7M 64 I7M H12 H12 H 0 1 N N N N N N -20.261 10.822 -23.319 11.126 -5.101 0.301 H12 I7M 65 I7M H13 H13 H 0 1 N N N N N N -18.593 10.189 -23.106 10.109 -6.546 -0.018 H13 I7M 66 I7M H14 H14 H 0 1 N N N N N N -21.075 9.669 -21.450 11.053 -4.403 -1.949 H14 I7M 67 I7M H15 H15 H 0 1 N N N N N N -19.688 8.582 -21.800 10.748 -6.141 -2.254 H15 I7M 68 I7M H16 H16 H 0 1 N N N N N N -13.075 20.507 -17.167 -0.429 6.130 -2.230 H16 I7M 69 I7M H17 H17 H 0 1 N N N N N N -11.403 20.421 -15.355 -2.605 6.035 -3.370 H17 I7M 70 I7M H18 H18 H 0 1 N N N N N N -11.535 22.066 -13.516 -4.337 4.471 -2.601 H18 I7M 71 I7M H19 H19 H 0 1 N N N N N N -15.687 24.343 -20.170 2.286 6.767 1.730 H19 I7M 72 I7M H20 H20 H 0 1 N N N N N N -12.231 25.876 -11.376 -7.744 2.363 -2.281 H20 I7M 73 I7M H21 H21 H 0 1 N N N N N N -12.321 27.621 -9.659 -9.533 0.877 -1.411 H21 I7M 74 I7M H22 H22 H 0 1 N N N N N N -16.555 27.212 -9.488 -6.835 -0.399 1.643 H22 I7M 75 I7M H23 H23 H 0 1 N N N N N N -15.474 28.508 -7.860 -9.208 -0.886 1.822 H23 I7M 76 I7M H24 H24 H 0 1 N N N N N N -13.682 28.583 -7.757 -10.340 -0.360 0.552 H24 I7M 77 I7M H25 H25 H 0 1 N N N N N N -12.623 29.786 -9.941 -11.259 -2.616 0.437 H25 I7M 78 I7M H26 H26 H 0 1 N N N N N N -12.722 30.531 -8.310 -10.127 -3.142 1.706 H26 I7M 79 I7M H27 H27 H 0 1 N N N N N N -12.515 31.934 -10.709 -10.316 -4.283 -1.125 H27 I7M 80 I7M H28 H28 H 0 1 N N N N N N -12.882 32.503 -7.916 -11.337 -5.134 1.601 H28 I7M 81 I7M H29 H29 H 0 1 N N N N N N -14.156 34.807 -9.073 -10.469 -7.319 1.390 H29 I7M 82 I7M H30 H30 H 0 1 N N N N N N -16.866 19.819 -16.246 0.070 1.826 -0.621 H30 I7M 83 I7M H31 H31 H 0 1 N N N N N N -15.291 19.184 -16.833 1.263 2.283 -1.873 H31 I7M 84 I7M H32 H32 H 0 1 N N N N N N -17.683 18.301 -17.770 1.699 0.790 0.734 H32 I7M 85 I7M H33 H33 H 0 1 N N N N N N -16.192 18.356 -18.770 2.532 0.587 -0.842 H33 I7M 86 I7M H34 H34 H 0 1 N N N N N N -18.588 20.142 -18.783 3.967 2.417 -0.457 H34 I7M 87 I7M H35 H35 H 0 1 N N N N N N -17.825 19.697 -23.777 4.260 0.297 4.281 H35 I7M 88 I7M H36 H36 H 0 1 N N N N N N -16.375 19.390 -22.762 5.753 1.157 4.725 H36 I7M 89 I7M H37 H37 H 0 1 N N N N N N -16.852 18.208 -24.028 4.427 2.032 3.922 H37 I7M 90 I7M H38 H38 H 0 1 N N N N N N -16.200 23.798 -14.755 -2.041 3.248 1.715 H38 I7M 91 I7M H39 H39 H 0 1 N N N N N N -14.948 25.086 -14.771 -2.086 1.836 0.632 H39 I7M 92 I7M H40 H40 H 0 1 N N N N N N -15.597 24.444 -16.319 -0.549 2.684 0.925 H40 I7M 93 I7M H41 H41 H 0 1 N N N N N N -18.922 14.106 -21.045 7.510 -2.885 1.352 H41 I7M 94 I7M H43 H43 H 0 1 N N N N N N -18.304 11.958 -19.741 7.278 -4.371 -1.184 H43 I7M 95 I7M H44 H44 H 0 1 N N N N N N -15.297 24.100 -12.615 -5.445 3.083 -2.074 H44 I7M 96 I7M H45 H45 H 0 1 N N N N N N -15.105 30.562 -8.597 -8.322 -2.483 0.218 H45 I7M 97 I7M H47 H47 H 0 1 N N N N N N -15.004 31.443 -11.277 -7.964 -4.418 0.111 H47 I7M 98 I7M H48 H48 H 0 1 N N N N N N -12.249 33.593 -9.196 -12.013 -5.484 -0.025 H48 I7M 99 I7M H49 H49 H 0 1 N N N N N N -14.822 33.670 -7.852 -10.514 -7.263 -0.400 H49 I7M 100 # 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 I7M CL1 C11 SING N N 1 I7M C12 C11 DOUB Y N 2 I7M C12 C13 SING Y N 3 I7M C19 C18 SING N N 4 I7M C19 C20 SING N N 5 I7M C11 C10 SING Y N 6 I7M C16 C13 SING N N 7 I7M C16 N2 SING N N 8 I7M C18 C17 SING N N 9 I7M C18 N3 SING N N 10 I7M C17 N2 SING N N 11 I7M C13 C14 DOUB Y N 12 I7M C20 C21 SING N N 13 I7M C10 O1 SING N N 14 I7M C10 N1 DOUB Y N 15 I7M O1 C9 SING N N 16 I7M N3 C21 SING N N 17 I7M C14 N1 SING Y N 18 I7M C14 O2 SING N N 19 I7M C21 O3 DOUB N N 20 I7M C4 C3 DOUB Y N 21 I7M C4 C5 SING Y N 22 I7M C3 C2 SING Y N 23 I7M O2 C15 SING N N 24 I7M C9 C5 SING N N 25 I7M C9 C8 SING N N 26 I7M C5 C6 DOUB Y N 27 I7M C2 C1 DOUB Y N 28 I7M C8 C7 SING N N 29 I7M C6 C1 SING Y N 30 I7M C6 C7 SING N N 31 I7M C1 C22 SING N N 32 I7M C23 C22 DOUB Y N 33 I7M C23 C24 SING Y N 34 I7M C22 C27 SING Y N 35 I7M C24 C25 DOUB Y N 36 I7M C27 CL2 SING N N 37 I7M C27 C26 DOUB Y N 38 I7M C25 C26 SING Y N 39 I7M C26 C28 SING N N 40 I7M C28 O5 DOUB N N 41 I7M C28 N4 SING N N 42 I7M N4 C29 SING N N 43 I7M C29 C30 DOUB Y N 44 I7M C29 N5 SING Y N 45 I7M C30 C31 SING Y N 46 I7M N5 C33 DOUB Y N 47 I7M N7 C36 SING N N 48 I7M N7 C39 SING N N 49 I7M O4 C39 DOUB N N 50 I7M C31 C32 DOUB Y N 51 I7M C36 C35 SING N N 52 I7M C36 C37 SING N N 53 I7M C39 C38 SING N N 54 I7M C33 C32 SING Y N 55 I7M C32 C34 SING N N 56 I7M C35 N6 SING N N 57 I7M N6 C34 SING N N 58 I7M C37 C38 SING N N 59 I7M C2 H1 SING N N 60 I7M C4 H2 SING N N 61 I7M C12 H3 SING N N 62 I7M C15 H4 SING N N 63 I7M C15 H5 SING N N 64 I7M C15 H6 SING N N 65 I7M C16 H7 SING N N 66 I7M C16 H8 SING N N 67 I7M C17 H9 SING N N 68 I7M C17 H10 SING N N 69 I7M C18 H11 SING N N 70 I7M C19 H12 SING N N 71 I7M C19 H13 SING N N 72 I7M C20 H14 SING N N 73 I7M C20 H15 SING N N 74 I7M C23 H16 SING N N 75 I7M C24 H17 SING N N 76 I7M C25 H18 SING N N 77 I7M C3 H19 SING N N 78 I7M C30 H20 SING N N 79 I7M C31 H21 SING N N 80 I7M C33 H22 SING N N 81 I7M C34 H23 SING N N 82 I7M C34 H24 SING N N 83 I7M C35 H25 SING N N 84 I7M C35 H26 SING N N 85 I7M C36 H27 SING N N 86 I7M C37 H28 SING N N 87 I7M C38 H29 SING N N 88 I7M C7 H30 SING N N 89 I7M C7 H31 SING N N 90 I7M C8 H32 SING N N 91 I7M C8 H33 SING N N 92 I7M C9 H34 SING N N 93 I7M CL1 H35 SING N N 94 I7M CL1 H36 SING N N 95 I7M CL1 H37 SING N N 96 I7M CL2 H38 SING N N 97 I7M CL2 H39 SING N N 98 I7M CL2 H40 SING N N 99 I7M N2 H41 SING N N 100 I7M N3 H43 SING N N 101 I7M N4 H44 SING N N 102 I7M N6 H45 SING N N 103 I7M N7 H47 SING N N 104 I7M C37 H48 SING N N 105 I7M C38 H49 SING N N 106 # 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 I7M InChI InChI 1.06 "InChI=1S/C41H47N7O5/c1-24-18-27(21-43-23-29-12-17-38(50)46-29)41(52-3)48-40(24)53-35-14-13-33-32(8-5-9-34(33)35)30-6-4-7-31(25(30)2)39(51)47-36-15-10-26(20-44-36)19-42-22-28-11-16-37(49)45-28/h4-10,15,18,20,28-29,35,42-43H,11-14,16-17,19,21-23H2,1-3H3,(H,45,49)(H,46,50)(H,44,47,51)/t28-,29-,35-/m0/s1" I7M InChIKey InChI 1.06 BTEIVMDCDNSPNU-RLSUVSHZSA-N I7M SMILES_CANONICAL CACTVS 3.385 "COc1nc(O[C@H]2CCc3c2cccc3c4cccc(C(=O)Nc5ccc(CNC[C@@H]6CCC(=O)N6)cn5)c4C)c(C)cc1CNC[C@@H]7CCC(=O)N7" I7M SMILES CACTVS 3.385 "COc1nc(O[CH]2CCc3c2cccc3c4cccc(C(=O)Nc5ccc(CNC[CH]6CCC(=O)N6)cn5)c4C)c(C)cc1CNC[CH]7CCC(=O)N7" I7M SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "Cc1cc(c(nc1O[C@H]2CCc3c2cccc3c4cccc(c4C)C(=O)Nc5ccc(cn5)CNC[C@@H]6CCC(=O)N6)OC)CNC[C@@H]7CCC(=O)N7" I7M SMILES "OpenEye OEToolkits" 2.0.7 "Cc1cc(c(nc1OC2CCc3c2cccc3c4cccc(c4C)C(=O)Nc5ccc(cn5)CNCC6CCC(=O)N6)OC)CNCC7CCC(=O)N7" # _pdbx_chem_comp_identifier.comp_id I7M _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 "3-[(1~{S})-1-[6-methoxy-3-methyl-5-[[[(2~{S})-5-oxidanylidenepyrrolidin-2-yl]methylamino]methyl]pyridin-2-yl]oxy-2,3-dihydro-1~{H}-inden-4-yl]-2-methyl-~{N}-[5-[[[(2~{S})-5-oxidanylidenepyrrolidin-2-yl]methylamino]methyl]pyridin-2-yl]benzamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site I7M "Create component" 2023-07-27 PDBC I7M "Initial release" 2024-01-03 RCSB #