data_A1JTS # _chem_comp.id A1JTS _chem_comp.name "~{N}-[(3~{S},6~{S},7~{R})-7-oxidanyl-4,8-bis(oxidanylidene)-6-[[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]methyl]-5,9-diazabicyclo[14.3.1]icosa-1(19),16(20),17-trien-3-yl]-3-phenyl-propanamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C32 H42 N4 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms RK-384 _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2025-11-05 _chem_comp.pdbx_modified_date 2026-08-14 _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 562.700 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1JTS _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 9T55 _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_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 A1JTS N1 N1 N 0 1 N N N N N N -11.902 -31.484 0.216 -3.726 -2.834 1.088 N1 A1JTS 1 A1JTS N3 N2 N 0 1 N N N N N N -16.322 -25.982 -0.879 1.003 1.510 -1.101 N3 A1JTS 2 A1JTS C4 C1 C 0 1 Y N N N N N -14.747 -28.030 -4.493 -3.256 4.903 -1.855 C4 A1JTS 3 A1JTS C5 C2 C 0 1 Y N N N N N -15.442 -27.726 -3.333 -2.213 4.071 -2.217 C5 A1JTS 4 A1JTS C6 C3 C 0 1 Y N N N N N -15.796 -28.730 -2.431 -2.252 2.731 -1.881 C6 A1JTS 5 A1JTS C7 C4 C 0 1 N N N N N N -14.414 -31.813 -4.211 -5.553 2.510 -0.058 C7 A1JTS 6 A1JTS C8 C5 C 0 1 N N N N N N -12.049 -32.753 -3.946 -6.032 0.468 1.294 C8 A1JTS 7 A1JTS C10 C6 C 0 1 N N N N N N -11.473 -31.983 -2.759 -5.768 -0.212 2.637 C10 A1JTS 8 A1JTS C13 C7 C 0 1 N N N N N N -11.913 -30.785 1.356 -2.516 -3.197 0.639 C13 A1JTS 9 A1JTS C15 C8 C 0 1 N N S N N N -12.758 -28.430 1.317 -0.257 -2.395 0.010 C15 A1JTS 10 A1JTS C17 C9 C 0 1 N N N N N N -14.408 -27.299 -0.117 -0.709 -0.203 -0.899 C17 A1JTS 11 A1JTS C20 C10 C 0 1 N N N N N N -15.889 -24.786 -0.455 1.736 1.602 0.026 C20 A1JTS 12 A1JTS C21 C11 C 0 1 N N N N N N -16.663 -23.694 -1.169 3.221 1.844 -0.059 C21 A1JTS 13 A1JTS C22 C12 C 0 1 N N N N N N -16.811 -22.308 -0.574 3.809 1.907 1.352 C22 A1JTS 14 A1JTS C24 C13 C 0 1 Y N N N N N -16.147 -21.143 -2.713 5.784 3.442 1.256 C24 A1JTS 15 A1JTS C26 C14 C 0 1 Y N N N N N -17.386 -19.299 -3.610 8.018 2.593 1.118 C26 A1JTS 16 A1JTS C28 C15 C 0 1 Y N N N N N -18.082 -20.344 -1.561 6.166 1.079 1.202 C28 A1JTS 17 A1JTS C1 C16 C 0 1 Y N N N N N -15.458 -30.044 -2.746 -3.330 2.223 -1.181 C1 A1JTS 18 A1JTS C2 C17 C 0 1 Y N N N N N -14.767 -30.375 -3.910 -4.372 3.054 -0.817 C2 A1JTS 19 A1JTS C3 C18 C 0 1 Y N N N N N -14.408 -29.340 -4.776 -4.334 4.395 -1.156 C3 A1JTS 20 A1JTS C9 C19 C 0 1 N N N N N N -13.040 -32.025 -4.846 -5.076 1.649 1.114 C9 A1JTS 21 A1JTS C11 C20 C 0 1 N N N N N N -10.974 -32.887 -1.631 -5.437 -1.689 2.406 C11 A1JTS 22 A1JTS C12 C21 C 0 1 N N N N N N -10.741 -32.214 -0.269 -3.936 -1.835 2.131 C12 A1JTS 23 A1JTS C14 C22 C 0 1 N N R N N N -13.111 -29.908 1.555 -1.223 -2.657 1.172 C14 A1JTS 24 A1JTS O1 O1 O 0 1 N N N N N N -14.048 -30.368 0.587 -1.415 -1.442 1.893 O1 A1JTS 25 A1JTS C16 C23 C 0 1 N N N N N N -11.977 -27.726 2.437 1.040 -3.175 0.240 C16 A1JTS 26 A1JTS N2 N3 N 0 1 N N N N N N -14.042 -27.774 1.081 0.040 -0.947 -0.037 N2 A1JTS 27 A1JTS O2 O2 O 0 1 N N N N N N -13.590 -27.055 -1.006 -1.583 -0.725 -1.559 O2 A1JTS 28 A1JTS C18 C24 C 0 1 N N S N N N -15.928 -27.249 -0.303 -0.442 1.274 -1.019 C18 A1JTS 29 A1JTS C19 C25 C 0 1 N N N N N N -16.525 -28.408 -1.145 -1.116 1.822 -2.277 C19 A1JTS 30 A1JTS O3 O3 O 0 1 N N N N N N -14.924 -24.627 0.386 1.200 1.491 1.109 O3 A1JTS 31 A1JTS C23 C26 C 0 1 Y N N N N N -17.024 -21.248 -1.636 5.293 2.149 1.268 C23 A1JTS 32 A1JTS C25 C27 C 0 1 Y N N N N N -16.333 -20.178 -3.690 7.146 3.664 1.178 C25 A1JTS 33 A1JTS C27 C28 C 0 1 Y N N N N N -18.258 -19.376 -2.545 7.529 1.300 1.136 C27 A1JTS 34 A1JTS O4 O4 O 0 1 N N N N N N -11.040 -30.774 2.176 -2.471 -4.030 -0.260 O4 A1JTS 35 A1JTS C29 C29 C 0 1 N N S N N N -11.664 -26.253 2.172 1.964 -2.996 -0.966 C29 A1JTS 36 A1JTS C30 C30 C 0 1 N N N N N N -10.575 -25.970 1.128 1.342 -3.644 -2.225 C30 A1JTS 37 A1JTS C31 C31 C 0 1 N N N N N N -9.810 -24.785 1.685 2.591 -4.211 -2.936 C31 A1JTS 38 A1JTS N4 N4 N 0 1 N N N N N N -10.084 -24.847 3.114 3.582 -4.428 -1.875 N4 A1JTS 39 A1JTS C32 C32 C 0 1 N N N N N N -11.156 -25.564 3.435 3.257 -3.752 -0.759 C32 A1JTS 40 A1JTS O5 O5 O 0 1 N N N N N N -11.659 -25.674 4.580 3.908 -3.750 0.265 O5 A1JTS 41 A1JTS H15 H1 H 0 1 N N N N N N -12.738 -31.506 -0.333 -4.514 -3.269 0.694 H15 A1JTS 42 A1JTS H27 H2 H 0 1 N N N N N N -16.962 -25.999 -1.647 1.431 1.599 -1.967 H27 A1JTS 43 A1JTS H3 H3 H 0 1 N N N N N N -14.470 -27.242 -5.177 -3.227 5.950 -2.118 H3 A1JTS 44 A1JTS H4 H4 H 0 1 N N N N N N -15.712 -26.701 -3.125 -1.369 4.468 -2.760 H4 A1JTS 45 A1JTS H5 H5 H 0 1 N N N N N N -14.443 -32.376 -3.266 -6.150 3.340 0.326 H5 A1JTS 46 A1JTS H6 H6 H 0 1 N N N N N N -15.173 -32.213 -4.900 -6.168 1.905 -0.725 H6 A1JTS 47 A1JTS H7 H7 H 0 1 N N N N N N -12.559 -33.641 -3.545 -5.881 -0.247 0.485 H7 A1JTS 48 A1JTS H8 H8 H 0 1 N N N N N N -11.204 -33.068 -4.575 -7.061 0.830 1.268 H8 A1JTS 49 A1JTS H11 H9 H 0 1 N N N N N N -10.630 -31.373 -3.115 -4.931 0.275 3.135 H11 A1JTS 50 A1JTS H12 H10 H 0 1 N N N N N N -12.257 -31.325 -2.357 -6.658 -0.136 3.264 H12 A1JTS 51 A1JTS H20 H11 H 0 1 N N N N N N -12.156 -28.371 0.398 -0.713 -2.710 -0.926 H20 A1JTS 52 A1JTS H28 H12 H 0 1 N N N N N N -16.180 -23.561 -2.148 3.690 1.031 -0.612 H28 A1JTS 53 A1JTS H29 H13 H 0 1 N N N N N N -17.683 -24.080 -1.313 3.406 2.788 -0.572 H29 A1JTS 54 A1JTS H30 H14 H 0 1 N N N N N N -17.675 -22.305 0.107 3.339 2.720 1.906 H30 A1JTS 55 A1JTS H31 H15 H 0 1 N N N N N N -15.898 -22.066 -0.010 3.623 0.964 1.866 H31 A1JTS 56 A1JTS H32 H16 H 0 1 N N N N N N -15.311 -21.823 -2.788 5.102 4.278 1.303 H32 A1JTS 57 A1JTS H34 H17 H 0 1 N N N N N N -17.530 -18.552 -4.377 9.083 2.766 1.066 H34 A1JTS 58 A1JTS H36 H18 H 0 1 N N N N N N -18.772 -20.395 -0.731 5.783 0.069 1.212 H36 A1JTS 59 A1JTS H1 H19 H 0 1 N N N N N N -15.741 -30.833 -2.065 -3.357 1.175 -0.921 H1 A1JTS 60 A1JTS H2 H20 H 0 1 N N N N N N -13.859 -29.566 -5.678 -5.151 5.044 -0.877 H2 A1JTS 61 A1JTS H10 H21 H 0 1 N N N N N N -12.620 -31.040 -5.099 -4.074 1.277 0.917 H10 A1JTS 62 A1JTS H9 H22 H 0 1 N N N N N N -13.171 -32.615 -5.765 -5.067 2.249 2.024 H9 A1JTS 63 A1JTS H13 H23 H 0 1 N N N N N N -11.718 -33.685 -1.487 -5.700 -2.264 3.292 H13 A1JTS 64 A1JTS H14 H24 H 0 1 N N N N N N -10.020 -33.329 -1.954 -6.000 -2.059 1.549 H14 A1JTS 65 A1JTS H16 H25 H 0 1 N N N N N N -9.901 -31.510 -0.366 -3.433 -2.142 3.048 H16 A1JTS 66 A1JTS H17 H26 H 0 1 N N N N N N -10.485 -32.991 0.466 -3.550 -0.869 1.802 H17 A1JTS 67 A1JTS H18 H27 H 0 1 N N N N N N -13.503 -30.032 2.575 -0.770 -3.398 1.839 H18 A1JTS 68 A1JTS H19 H28 H 0 1 N N N N N N -14.846 -29.856 0.649 -0.616 -1.112 2.326 H19 A1JTS 69 A1JTS H21 H29 H 0 1 N N N N N N -12.571 -27.789 3.360 1.535 -2.799 1.136 H21 A1JTS 70 A1JTS H22 H30 H 0 1 N N N N N N -11.025 -28.258 2.577 0.810 -4.232 0.368 H22 A1JTS 71 A1JTS H23 H31 H 0 1 N N N N N N -14.676 -27.675 1.848 0.730 -0.553 0.519 H23 A1JTS 72 A1JTS H24 H32 H 0 1 N N N N N N -16.377 -27.321 0.699 -0.841 1.787 -0.143 H24 A1JTS 73 A1JTS H25 H33 H 0 1 N N N N N N -16.525 -29.314 -0.521 -1.500 1.000 -2.878 H25 A1JTS 74 A1JTS H26 H34 H 0 1 N N N N N N -17.560 -28.140 -1.402 -0.388 2.386 -2.862 H26 A1JTS 75 A1JTS H33 H35 H 0 1 N N N N N N -15.645 -20.116 -4.520 7.528 4.673 1.164 H33 A1JTS 76 A1JTS H35 H36 H 0 1 N N N N N N -19.082 -18.681 -2.474 8.211 0.464 1.098 H35 A1JTS 77 A1JTS H37 H37 H 0 1 N N N N N N -12.590 -25.753 1.851 2.162 -1.938 -1.140 H37 A1JTS 78 A1JTS H38 H38 H 0 1 N N N N N N -9.912 -26.840 1.012 0.653 -4.443 -1.952 H38 A1JTS 79 A1JTS H39 H39 H 0 1 N N N N N N -11.025 -25.720 0.156 0.846 -2.897 -2.844 H39 A1JTS 80 A1JTS H40 H40 H 0 1 N N N N N N -8.733 -24.884 1.486 2.350 -5.155 -3.426 H40 A1JTS 81 A1JTS H41 H41 H 0 1 N N N N N N -10.177 -23.842 1.254 2.969 -3.493 -3.664 H41 A1JTS 82 A1JTS H42 H42 H 0 1 N N N N N N -9.514 -24.389 3.796 4.369 -4.986 -1.968 H42 A1JTS 83 # 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 A1JTS C1 C2 DOUB Y N 1 A1JTS C2 C3 SING Y N 2 A1JTS C3 C4 DOUB Y N 3 A1JTS C4 C5 SING Y N 4 A1JTS C5 C6 DOUB Y N 5 A1JTS C1 C6 SING Y N 6 A1JTS C2 C7 SING N N 7 A1JTS C8 C9 SING N N 8 A1JTS C7 C9 SING N N 9 A1JTS C8 C10 SING N N 10 A1JTS C10 C11 SING N N 11 A1JTS N1 C12 SING N N 12 A1JTS C11 C12 SING N N 13 A1JTS N1 C13 SING N N 14 A1JTS C13 C14 SING N N 15 A1JTS C14 O1 SING N N 16 A1JTS C14 C15 SING N N 17 A1JTS C15 C16 SING N N 18 A1JTS C15 N2 SING N N 19 A1JTS N2 C17 SING N N 20 A1JTS C17 O2 DOUB N N 21 A1JTS C17 C18 SING N N 22 A1JTS C18 C19 SING N N 23 A1JTS C6 C19 SING N N 24 A1JTS C18 N3 SING N N 25 A1JTS N3 C20 SING N N 26 A1JTS C20 C21 SING N N 27 A1JTS C20 O3 DOUB N N 28 A1JTS C21 C22 SING N N 29 A1JTS C22 C23 SING N N 30 A1JTS C23 C24 DOUB Y N 31 A1JTS C24 C25 SING Y N 32 A1JTS C25 C26 DOUB Y N 33 A1JTS C26 C27 SING Y N 34 A1JTS C27 C28 DOUB Y N 35 A1JTS C23 C28 SING Y N 36 A1JTS C13 O4 DOUB N N 37 A1JTS C16 C29 SING N N 38 A1JTS C29 C30 SING N N 39 A1JTS C30 C31 SING N N 40 A1JTS C31 N4 SING N N 41 A1JTS N4 C32 SING N N 42 A1JTS C29 C32 SING N N 43 A1JTS C32 O5 DOUB N N 44 A1JTS N1 H15 SING N N 45 A1JTS N3 H27 SING N N 46 A1JTS C4 H3 SING N N 47 A1JTS C5 H4 SING N N 48 A1JTS C7 H5 SING N N 49 A1JTS C7 H6 SING N N 50 A1JTS C8 H7 SING N N 51 A1JTS C8 H8 SING N N 52 A1JTS C10 H11 SING N N 53 A1JTS C10 H12 SING N N 54 A1JTS C15 H20 SING N N 55 A1JTS C21 H28 SING N N 56 A1JTS C21 H29 SING N N 57 A1JTS C22 H30 SING N N 58 A1JTS C22 H31 SING N N 59 A1JTS C24 H32 SING N N 60 A1JTS C26 H34 SING N N 61 A1JTS C28 H36 SING N N 62 A1JTS C1 H1 SING N N 63 A1JTS C3 H2 SING N N 64 A1JTS C9 H10 SING N N 65 A1JTS C9 H9 SING N N 66 A1JTS C11 H13 SING N N 67 A1JTS C11 H14 SING N N 68 A1JTS C12 H16 SING N N 69 A1JTS C12 H17 SING N N 70 A1JTS C14 H18 SING N N 71 A1JTS O1 H19 SING N N 72 A1JTS C16 H21 SING N N 73 A1JTS C16 H22 SING N N 74 A1JTS N2 H23 SING N N 75 A1JTS C18 H24 SING N N 76 A1JTS C19 H25 SING N N 77 A1JTS C19 H26 SING N N 78 A1JTS C25 H33 SING N N 79 A1JTS C27 H35 SING N N 80 A1JTS C29 H37 SING N N 81 A1JTS C30 H38 SING N N 82 A1JTS C30 H39 SING N N 83 A1JTS C31 H40 SING N N 84 A1JTS C31 H41 SING N N 85 A1JTS N4 H42 SING N N 86 # 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 A1JTS InChI InChI 1.06 "InChI=1S/C32H42N4O5/c37-28(15-14-22-9-5-3-6-10-22)35-27-20-24-13-8-12-23(19-24)11-4-1-2-7-17-33-32(41)29(38)26(36-31(27)40)21-25-16-18-34-30(25)39/h3,5-6,8-10,12-13,19,25-27,29,38H,1-2,4,7,11,14-18,20-21H2,(H,33,41)(H,34,39)(H,35,37)(H,36,40)/t25-,26-,27-,29+/m0/s1" A1JTS InChIKey InChI 1.06 DOPLALYYQSSXGU-PFWSVGDOSA-N A1JTS SMILES_CANONICAL CACTVS 3.385 "O[C@@H]1[C@H](C[C@@H]2CCNC2=O)NC(=O)[C@H](Cc3cccc(CCCCCCNC1=O)c3)NC(=O)CCc4ccccc4" A1JTS SMILES CACTVS 3.385 "O[CH]1[CH](C[CH]2CCNC2=O)NC(=O)[CH](Cc3cccc(CCCCCCNC1=O)c3)NC(=O)CCc4ccccc4" A1JTS SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CCC(=O)N[C@H]2Cc3cccc(c3)CCCCCCNC(=O)[C@@H]([C@@H](NC2=O)C[C@@H]4CCNC4=O)O" A1JTS SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CCC(=O)NC2Cc3cccc(c3)CCCCCCNC(=O)C(C(NC2=O)CC4CCNC4=O)O" # _pdbx_chem_comp_identifier.comp_id A1JTS _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 "~{N}-[(3~{S},6~{S},7~{R})-7-oxidanyl-4,8-bis(oxidanylidene)-6-[[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]methyl]-5,9-diazabicyclo[14.3.1]icosa-1(19),16(20),17-trien-3-yl]-3-phenyl-propanamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1JTS "Create component" 2025-11-05 PDBE A1JTS "Modify PCM" 2025-11-05 PDBE A1JTS "Initial release" 2026-08-19 RCSB # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1JTS _pdbx_chem_comp_synonyms.name RK-384 _pdbx_chem_comp_synonyms.provenance AUTHOR _pdbx_chem_comp_synonyms.type ? # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1JTS _pdbx_chem_comp_pcm.modified_residue_id CYS _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 C14 _pdbx_chem_comp_pcm.modified_residue_id_linking_atom SG _pdbx_chem_comp_pcm.uniprot_specific_ptm_accession ? _pdbx_chem_comp_pcm.uniprot_generic_ptm_accession ? #