data_A1IY5 # _chem_comp.id A1IY5 _chem_comp.name "(3~{S},7~{S},8~{S})-7-oxidanyl-8-(phenylmethyl)-3-(pyridin-3-ylmethyl)-1,4,9-triazacyclotricosane-2,5,10-trione" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C33 H48 N4 O4" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-01-20 _chem_comp.pdbx_modified_date 2025-03-21 _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 564.759 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1IY5 _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 6R61 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE _chem_comp.pdbx_pcm ? # 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_n_terminal_atom_flag _chem_comp_atom.pdbx_backbone_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 A1IY5 C4 C1 C 0 1 Y N N N N N -9.881 -14.120 4.088 0.542 -4.438 0.730 C4 A1IY5 1 A1IY5 C14 C2 C 0 1 Y N N N N N -8.653 -14.930 14.203 5.980 -0.157 -0.308 C14 A1IY5 2 A1IY5 C5 C3 C 0 1 Y N N N N N -8.972 -15.165 3.883 -0.480 -3.521 0.892 C5 A1IY5 3 A1IY5 C6 C4 C 0 1 N N N N N N -8.615 -16.157 4.968 -0.198 -2.047 0.760 C6 A1IY5 4 A1IY5 C11 C5 C 0 1 N N S N N N -7.891 -14.739 10.839 3.164 1.457 0.298 C11 A1IY5 5 A1IY5 C7 C6 C 0 1 N N S N N N -7.371 -15.789 5.806 -0.247 -1.648 -0.716 C7 A1IY5 6 A1IY5 C8 C7 C 0 1 N N S N N N -7.191 -16.819 6.924 0.862 -2.373 -1.480 C8 A1IY5 7 A1IY5 C9 C8 C 0 1 N N N N N N -6.144 -16.399 7.972 2.211 -2.078 -0.822 C9 A1IY5 8 A1IY5 C10 C9 C 0 1 N N N N N N -6.633 -15.310 8.782 2.455 -0.590 -0.819 C10 A1IY5 9 A1IY5 C12 C10 C 0 1 N N N N N N -6.720 -14.164 11.645 1.961 2.184 -0.245 C12 A1IY5 10 A1IY5 C13 C11 C 0 1 N N N N N N -8.906 -15.406 11.755 4.381 1.760 -0.579 C13 A1IY5 11 A1IY5 N1 N1 N 0 1 N N N N N N -7.425 -15.669 9.829 2.910 0.015 0.296 N1 A1IY5 12 A1IY5 N2 N2 N 0 1 N N N N N N -6.765 -12.862 11.962 1.680 3.433 0.232 N2 A1IY5 13 A1IY5 C3 C12 C 0 1 Y N N N N N -10.190 -13.299 3.025 0.282 -5.790 0.845 C3 A1IY5 14 A1IY5 O2 O1 O 0 1 N N N N N N -5.816 -14.863 12.020 1.257 1.671 -1.088 O2 A1IY5 15 A1IY5 C15 C13 C 0 1 Y N N N N N -9.245 -14.590 12.987 5.609 1.134 0.032 C15 A1IY5 16 A1IY5 C33 C14 C 0 1 Y N N N N N -8.940 -14.140 15.378 7.117 -0.693 0.279 C33 A1IY5 17 A1IY5 C32 C15 C 0 1 Y N N N N N -9.838 -13.083 15.294 7.839 0.075 1.172 C32 A1IY5 18 A1IY5 N15 N3 N 0 1 Y N N N N N -10.404 -12.794 14.071 7.458 1.303 1.468 N15 A1IY5 19 A1IY5 C31 C16 C 0 1 Y N N N N N -10.144 -13.529 12.875 6.378 1.840 0.938 C31 A1IY5 20 A1IY5 O1 O2 O 0 1 N N N N N N -6.303 -14.122 8.594 2.242 0.061 -1.820 O1 A1IY5 21 A1IY5 O8 O3 O 0 1 N N N N N N -6.772 -18.076 6.346 0.883 -1.919 -2.835 O8 A1IY5 22 A1IY5 C29 C17 C 0 1 N N N N N N -5.954 -12.184 12.920 0.489 4.084 -0.360 C29 A1IY5 23 A1IY5 C28 C18 C 0 1 N N N N N N -5.329 -10.925 12.309 -0.507 4.393 0.761 C28 A1IY5 24 A1IY5 C27 C19 C 0 1 N N N N N N -4.458 -11.124 11.042 -1.403 5.559 0.340 C27 A1IY5 25 A1IY5 C26 C20 C 0 1 N N N N N N -2.941 -11.232 11.177 -2.818 5.335 0.878 C26 A1IY5 26 A1IY5 C25 C21 C 0 1 N N N N N N -2.312 -12.640 10.915 -3.787 5.162 -0.293 C25 A1IY5 27 A1IY5 C24 C22 C 0 1 N N N N N N -2.619 -13.293 9.579 -5.045 4.436 0.189 C24 A1IY5 28 A1IY5 C23 C23 C 0 1 N N N N N N -1.391 -13.545 8.672 -4.789 2.928 0.204 C23 A1IY5 29 A1IY5 C22 C24 C 0 1 N N N N N N -1.730 -14.677 7.747 -6.125 2.183 0.207 C22 A1IY5 30 A1IY5 C21 C25 C 0 1 N N N N N N -0.902 -14.745 6.449 -5.952 0.828 0.896 C21 A1IY5 31 A1IY5 C20 C26 C 0 1 N N N N N N -1.460 -13.893 5.323 -5.642 -0.242 -0.153 C20 A1IY5 32 A1IY5 C19 C27 C 0 1 N N N N N N -2.818 -14.491 4.989 -5.933 -1.627 0.430 C19 A1IY5 33 A1IY5 C18 C28 C 0 1 N N N N N N -3.318 -14.050 3.669 -4.851 -2.609 -0.022 C18 A1IY5 34 A1IY5 C17 C29 C 0 1 N N N N N N -4.607 -14.767 3.347 -4.022 -1.977 -1.143 C17 A1IY5 35 A1IY5 C16 C30 C 0 1 N N N N N N -5.641 -14.618 4.465 -2.658 -1.614 -0.615 C16 A1IY5 36 A1IY5 O3 O4 O 0 1 N N N N N N -5.969 -13.524 4.910 -2.548 -0.957 0.399 O3 A1IY5 37 A1IY5 N N4 N 0 1 N N N N N N -6.255 -15.718 4.900 -1.553 -2.032 -1.289 N A1IY5 38 A1IY5 C C31 C 0 1 Y N N N N N -8.406 -15.335 2.610 -1.762 -3.957 1.173 C A1IY5 39 A1IY5 C2 C32 C 0 1 Y N N N N N -9.601 -13.471 1.759 -1.000 -6.226 1.127 C2 A1IY5 40 A1IY5 C1 C33 C 0 1 Y N N N N N -8.706 -14.489 1.557 -2.020 -5.309 1.295 C1 A1IY5 41 A1IY5 H1 H1 H 0 1 N N N N N N -10.330 -13.961 5.057 1.543 -4.097 0.510 H1 A1IY5 42 A1IY5 H2 H2 H 0 1 N N N N N N -7.986 -15.777 14.266 5.396 -0.734 -1.010 H2 A1IY5 43 A1IY5 H3 H3 H 0 1 N N N N N N -9.474 -16.240 5.650 -0.948 -1.482 1.314 H3 A1IY5 44 A1IY5 H4 H4 H 0 1 N N N N N N -8.430 -17.131 4.492 0.791 -1.829 1.163 H4 A1IY5 45 A1IY5 H5 H5 H 0 1 N N N N N N -8.394 -13.899 10.338 3.360 1.789 1.318 H5 A1IY5 46 A1IY5 H6 H6 H 0 1 N N N N N N -7.541 -14.803 6.264 -0.111 -0.570 -0.808 H6 A1IY5 47 A1IY5 H7 H7 H 0 1 N N N N N N -8.157 -16.952 7.434 0.675 -3.447 -1.459 H7 A1IY5 48 A1IY5 H8 H8 H 0 1 N N N N N N -5.920 -17.258 8.621 2.204 -2.447 0.203 H8 A1IY5 49 A1IY5 H9 H9 H 0 1 N N N N N N -5.226 -16.080 7.456 3.005 -2.575 -1.381 H9 A1IY5 50 A1IY5 H10 H10 H 0 1 N N N N N N -9.831 -15.574 11.184 4.222 1.350 -1.576 H10 A1IY5 51 A1IY5 H11 H11 H 0 1 N N N N N N -8.496 -16.373 12.081 4.519 2.839 -0.647 H11 A1IY5 52 A1IY5 H12 H12 H 0 1 N N N N N N -7.701 -16.627 9.906 3.069 -0.506 1.098 H12 A1IY5 53 A1IY5 H13 H13 H 0 1 N N N N N N -7.439 -12.307 11.475 2.222 3.863 0.911 H13 A1IY5 54 A1IY5 H14 H14 H 0 1 N N N N N N -10.904 -12.501 3.168 1.079 -6.507 0.714 H14 A1IY5 55 A1IY5 H15 H15 H 0 1 N N N N N N -8.459 -14.370 16.317 7.434 -1.697 0.041 H15 A1IY5 56 A1IY5 H16 H16 H 0 1 N N N N N N -10.087 -12.500 16.168 8.725 -0.335 1.634 H16 A1IY5 57 A1IY5 H17 H17 H 0 1 N N N N N N -10.616 -13.278 11.937 6.095 2.847 1.207 H17 A1IY5 58 A1IY5 H18 H18 H 0 1 N N N N N N -6.659 -18.720 7.035 1.564 -2.338 -3.380 H18 A1IY5 59 A1IY5 H19 H19 H 0 1 N N N N N N -6.576 -11.897 13.781 0.785 5.011 -0.851 H19 A1IY5 60 A1IY5 H20 H20 H 0 1 N N N N N N -5.152 -12.858 13.256 0.029 3.415 -1.087 H20 A1IY5 61 A1IY5 H21 H21 H 0 1 N N N N N N -4.696 -10.460 13.079 -1.122 3.513 0.952 H21 A1IY5 62 A1IY5 H22 H22 H 0 1 N N N N N N -6.149 -10.240 12.046 0.037 4.661 1.666 H22 A1IY5 63 A1IY5 H23 H23 H 0 1 N N N N N N -4.659 -10.270 10.379 -1.004 6.489 0.745 H23 A1IY5 64 A1IY5 H24 H24 H 0 1 N N N N N N -4.802 -12.051 10.560 -1.434 5.620 -0.748 H24 A1IY5 65 A1IY5 H25 H25 H 0 1 N N N N N N -2.675 -10.933 12.202 -2.833 4.438 1.497 H25 A1IY5 66 A1IY5 H26 H26 H 0 1 N N N N N N -2.492 -10.528 10.462 -3.120 6.195 1.475 H26 A1IY5 67 A1IY5 H27 H27 H 0 1 N N N N N N -2.670 -13.316 11.705 -4.061 6.141 -0.686 H27 A1IY5 68 A1IY5 H28 H28 H 0 1 N N N N N N -1.220 -12.535 10.990 -3.308 4.577 -1.078 H28 A1IY5 69 A1IY5 H29 H29 H 0 1 N N N N N N -3.317 -12.641 9.034 -5.296 4.772 1.195 H29 A1IY5 70 A1IY5 H30 H30 H 0 1 N N N N N N -3.101 -14.262 9.776 -5.873 4.657 -0.485 H30 A1IY5 71 A1IY5 H31 H31 H 0 1 N N N N N N -0.520 -13.813 9.288 -4.218 2.647 -0.681 H31 A1IY5 72 A1IY5 H32 H32 H 0 1 N N N N N N -1.164 -12.640 8.089 -4.224 2.664 1.099 H32 A1IY5 73 A1IY5 H33 H33 H 0 1 N N N N N N -2.790 -14.581 7.468 -6.868 2.772 0.744 H33 A1IY5 74 A1IY5 H34 H34 H 0 1 N N N N N N -1.579 -15.619 8.295 -6.457 2.029 -0.820 H34 A1IY5 75 A1IY5 H35 H35 H 0 1 N N N N N N -0.872 -15.791 6.111 -5.131 0.885 1.610 H35 A1IY5 76 A1IY5 H36 H36 H 0 1 N N N N N N 0.119 -14.402 6.670 -6.872 0.567 1.420 H36 A1IY5 77 A1IY5 H37 H37 H 0 1 N N N N N N -0.797 -13.934 4.446 -6.266 -0.080 -1.033 H37 A1IY5 78 A1IY5 H38 H38 H 0 1 N N N N N N -1.571 -12.849 5.651 -4.592 -0.180 -0.436 H38 A1IY5 79 A1IY5 H39 H39 H 0 1 N N N N N N -3.539 -14.184 5.761 -5.939 -1.568 1.518 H39 A1IY5 80 A1IY5 H40 H40 H 0 1 N N N N N N -2.730 -15.587 4.985 -6.906 -1.971 0.079 H40 A1IY5 81 A1IY5 H41 H41 H 0 1 N N N N N N -2.568 -14.282 2.898 -4.201 -2.846 0.820 H41 A1IY5 82 A1IY5 H42 H42 H 0 1 N N N N N N -3.499 -12.965 3.690 -5.319 -3.522 -0.388 H42 A1IY5 83 A1IY5 H43 H43 H 0 1 N N N N N N -5.024 -14.348 2.419 -3.917 -2.688 -1.962 H43 A1IY5 84 A1IY5 H44 H44 H 0 1 N N N N N N -4.392 -15.836 3.202 -4.523 -1.079 -1.503 H44 A1IY5 85 A1IY5 H45 H45 H 0 1 N N N N N N -5.902 -16.589 4.560 -1.619 -2.555 -2.103 H45 A1IY5 86 A1IY5 H46 H46 H 0 1 N N N N N N -7.716 -16.150 2.448 -2.560 -3.241 1.299 H46 A1IY5 87 A1IY5 H47 H47 H 0 1 N N N N N N -9.853 -12.803 0.949 -1.203 -7.283 1.216 H47 A1IY5 88 A1IY5 H48 H48 H 0 1 N N N N N N -8.242 -14.629 0.592 -3.022 -5.650 1.515 H48 A1IY5 89 # 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 A1IY5 C1 C2 DOUB Y N 1 A1IY5 C1 C SING Y N 2 A1IY5 C2 C3 SING Y N 3 A1IY5 C C5 DOUB Y N 4 A1IY5 C3 C4 DOUB Y N 5 A1IY5 C17 C18 SING N N 6 A1IY5 C17 C16 SING N N 7 A1IY5 C18 C19 SING N N 8 A1IY5 C5 C4 SING Y N 9 A1IY5 C5 C6 SING N N 10 A1IY5 C16 N SING N N 11 A1IY5 C16 O3 DOUB N N 12 A1IY5 N C7 SING N N 13 A1IY5 C6 C7 SING N N 14 A1IY5 C19 C20 SING N N 15 A1IY5 C20 C21 SING N N 16 A1IY5 C7 C8 SING N N 17 A1IY5 O8 C8 SING N N 18 A1IY5 C21 C22 SING N N 19 A1IY5 C8 C9 SING N N 20 A1IY5 C22 C23 SING N N 21 A1IY5 C9 C10 SING N N 22 A1IY5 O1 C10 DOUB N N 23 A1IY5 C23 C24 SING N N 24 A1IY5 C10 N1 SING N N 25 A1IY5 C24 C25 SING N N 26 A1IY5 N1 C11 SING N N 27 A1IY5 C11 C12 SING N N 28 A1IY5 C11 C13 SING N N 29 A1IY5 C25 C26 SING N N 30 A1IY5 C27 C26 SING N N 31 A1IY5 C27 C28 SING N N 32 A1IY5 C12 N2 SING N N 33 A1IY5 C12 O2 DOUB N N 34 A1IY5 C13 C15 SING N N 35 A1IY5 N2 C29 SING N N 36 A1IY5 C28 C29 SING N N 37 A1IY5 C31 C15 SING Y N 38 A1IY5 C31 N15 DOUB Y N 39 A1IY5 C15 C14 DOUB Y N 40 A1IY5 N15 C32 SING Y N 41 A1IY5 C14 C33 SING Y N 42 A1IY5 C32 C33 DOUB Y N 43 A1IY5 C4 H1 SING N N 44 A1IY5 C14 H2 SING N N 45 A1IY5 C6 H3 SING N N 46 A1IY5 C6 H4 SING N N 47 A1IY5 C11 H5 SING N N 48 A1IY5 C7 H6 SING N N 49 A1IY5 C8 H7 SING N N 50 A1IY5 C9 H8 SING N N 51 A1IY5 C9 H9 SING N N 52 A1IY5 C13 H10 SING N N 53 A1IY5 C13 H11 SING N N 54 A1IY5 N1 H12 SING N N 55 A1IY5 N2 H13 SING N N 56 A1IY5 C3 H14 SING N N 57 A1IY5 C33 H15 SING N N 58 A1IY5 C32 H16 SING N N 59 A1IY5 C31 H17 SING N N 60 A1IY5 O8 H18 SING N N 61 A1IY5 C29 H19 SING N N 62 A1IY5 C29 H20 SING N N 63 A1IY5 C28 H21 SING N N 64 A1IY5 C28 H22 SING N N 65 A1IY5 C27 H23 SING N N 66 A1IY5 C27 H24 SING N N 67 A1IY5 C26 H25 SING N N 68 A1IY5 C26 H26 SING N N 69 A1IY5 C25 H27 SING N N 70 A1IY5 C25 H28 SING N N 71 A1IY5 C24 H29 SING N N 72 A1IY5 C24 H30 SING N N 73 A1IY5 C23 H31 SING N N 74 A1IY5 C23 H32 SING N N 75 A1IY5 C22 H33 SING N N 76 A1IY5 C22 H34 SING N N 77 A1IY5 C21 H35 SING N N 78 A1IY5 C21 H36 SING N N 79 A1IY5 C20 H37 SING N N 80 A1IY5 C20 H38 SING N N 81 A1IY5 C19 H39 SING N N 82 A1IY5 C19 H40 SING N N 83 A1IY5 C18 H41 SING N N 84 A1IY5 C18 H42 SING N N 85 A1IY5 C17 H43 SING N N 86 A1IY5 C17 H44 SING N N 87 A1IY5 N H45 SING N N 88 A1IY5 C H46 SING N N 89 A1IY5 C2 H47 SING N N 90 A1IY5 C1 H48 SING N N 91 # 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 A1IY5 InChI InChI 1.06 "InChI=1S/C33H48N4O4/c38-30-24-32(40)37-29(23-27-18-15-20-34-25-27)33(41)35-21-14-9-7-5-3-1-2-4-6-8-13-19-31(39)36-28(30)22-26-16-11-10-12-17-26/h10-12,15-18,20,25,28-30,38H,1-9,13-14,19,21-24H2,(H,35,41)(H,36,39)(H,37,40)/t28-,29-,30-/m0/s1" A1IY5 InChIKey InChI 1.06 RYGGELGJKGMCRW-DTXPUJKBSA-N A1IY5 SMILES_CANONICAL CACTVS 3.385 "O[C@H]1CC(=O)N[C@@H](Cc2cccnc2)C(=O)NCCCCCCCCCCCCCC(=O)N[C@H]1Cc3ccccc3" A1IY5 SMILES CACTVS 3.385 "O[CH]1CC(=O)N[CH](Cc2cccnc2)C(=O)NCCCCCCCCCCCCCC(=O)N[CH]1Cc3ccccc3" A1IY5 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)C[C@H]2[C@H](CC(=O)N[C@H](C(=O)NCCCCCCCCCCCCCC(=O)N2)Cc3cccnc3)O" A1IY5 SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CC2C(CC(=O)NC(C(=O)NCCCCCCCCCCCCCC(=O)N2)Cc3cccnc3)O" # _pdbx_chem_comp_identifier.comp_id A1IY5 _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~{S},7~{S},8~{S})-7-oxidanyl-8-(phenylmethyl)-3-(pyridin-3-ylmethyl)-1,4,9-triazacyclotricosane-2,5,10-trione" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1IY5 "Create component" 2025-01-20 PDBE A1IY5 "Initial release" 2025-03-26 RCSB #