data_A1JTR # _chem_comp.id A1JTR _chem_comp.name "N-[(3R,6R,7R)-7-oxidanyl-4,8-bis(oxidanylidene)-6-[[(3S)-2-oxidanylidenepyrrolidin-3-yl]methyl]-5,9-diazabicyclo[13.3.1]nonadeca-1(18),15(19),16-trien-3-yl]-2-phenyl-ethanamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C30 H38 N4 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms RK-468 _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 534.647 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1JTR _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 9T5E _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 A1JTR N1 N1 N 0 1 N N N N N N 16.443 6.210 -24.972 1.701 4.650 -2.793 N1 A1JTR 1 A1JTR N3 N2 N 0 1 N N N N N N 23.351 3.503 -23.722 -1.980 1.587 2.986 N3 A1JTR 2 A1JTR C4 C1 C 0 1 N N N N N N 17.133 7.405 -25.442 3.158 4.470 -2.798 C4 A1JTR 3 A1JTR C5 C2 C 0 1 N N N N N N 19.449 4.538 -25.117 1.863 2.840 0.241 C5 A1JTR 4 A1JTR C6 C3 C 0 1 N N R N N N 20.726 4.281 -25.931 0.557 2.078 0.467 C6 A1JTR 5 A1JTR C7 C4 C 0 1 N N R N N N 21.583 3.127 -25.361 0.218 2.068 1.959 C7 A1JTR 6 A1JTR C8 C5 C 0 1 N N N N N N 22.040 3.308 -23.916 -1.245 2.379 2.145 C8 A1JTR 7 A1JTR C10 C6 C 0 1 N N R N N N 22.884 7.181 -27.345 -0.287 -1.227 -1.217 C10 A1JTR 8 A1JTR C13 C7 C 0 1 N N N N N N 21.539 9.274 -27.197 1.950 -1.997 -0.634 C13 A1JTR 9 A1JTR C15 C8 C 0 1 Y N N N N N 19.630 10.035 -28.709 4.112 -2.801 0.222 C15 A1JTR 10 A1JTR C17 C9 C 0 1 Y N N N N N 17.316 10.493 -29.235 4.810 -4.571 1.675 C17 A1JTR 11 A1JTR C20 C10 C 0 1 Y N N N N N 19.548 8.900 -29.509 4.785 -1.887 1.012 C20 A1JTR 12 A1JTR C21 C11 C 0 1 Y N N N N N 25.553 4.739 -28.075 -2.770 -3.283 -2.664 C21 A1JTR 13 A1JTR C22 C12 C 0 1 Y N N N N N 26.490 3.931 -27.450 -3.939 -3.937 -2.319 C22 A1JTR 14 A1JTR C24 C13 C 0 1 Y N N N N N 26.703 5.533 -25.657 -4.474 -2.152 -0.815 C24 A1JTR 15 A1JTR C26 C14 C 0 1 N N N N N N 27.297 5.972 -24.337 -5.406 -1.550 0.205 C26 A1JTR 16 A1JTR C28 C15 C 0 1 N N N N N N 25.186 5.846 -22.813 -4.610 0.341 1.630 C28 A1JTR 17 A1JTR C1 C16 C 0 1 N N N N N N 16.974 5.078 -25.416 1.107 3.796 -1.941 C1 A1JTR 18 A1JTR C2 C17 C 0 1 N N S N N N 18.402 5.372 -25.861 2.146 2.934 -1.259 C2 A1JTR 19 A1JTR C3 C18 C 0 1 N N N N N N 18.551 6.898 -25.746 3.480 3.674 -1.513 C3 A1JTR 20 A1JTR N2 N3 N 0 1 N N N N N N 21.518 5.510 -26.090 0.713 0.674 0.011 N2 A1JTR 21 A1JTR O1 O1 O 0 1 N N N N N N 21.210 3.223 -23.017 -1.759 3.310 1.562 O1 A1JTR 22 A1JTR O2 O2 O 0 1 N N N N N N 22.734 2.989 -26.175 1.004 3.054 2.632 O2 A1JTR 23 A1JTR C9 C19 C 0 1 N N N N N N 21.943 5.962 -27.288 -0.350 0.188 -0.703 C9 A1JTR 24 A1JTR N4 N4 N 0 1 N N N N N N 22.263 8.382 -27.893 1.094 -1.555 -1.577 N4 A1JTR 25 A1JTR C11 C20 C 0 1 N N N N N N 24.149 6.848 -28.174 -1.182 -1.361 -2.451 C11 A1JTR 26 A1JTR C12 C21 C 0 1 Y N N N N N 25.169 5.955 -27.506 -2.455 -2.073 -2.074 C12 A1JTR 27 A1JTR O3 O3 O 0 1 N N N N N N 21.617 5.406 -28.353 -1.321 0.883 -0.918 O3 A1JTR 28 A1JTR O4 O4 O 0 1 N N N N N N 16.396 3.970 -25.512 -0.088 3.727 -1.748 O4 A1JTR 29 A1JTR C14 C22 C 0 1 N N N N N N 20.918 10.408 -28.005 3.371 -2.334 -1.004 C14 A1JTR 30 A1JTR O5 O5 O 0 1 N N N N N N 21.370 9.184 -25.974 1.576 -2.123 0.513 O5 A1JTR 31 A1JTR C16 C23 C 0 1 Y N N N N N 18.494 10.829 -28.584 4.125 -4.143 0.553 C16 A1JTR 32 A1JTR C18 C24 C 0 1 Y N N N N N 17.258 9.366 -30.021 5.483 -3.658 2.464 C18 A1JTR 33 A1JTR C19 C25 C 0 1 Y N N N N N 18.369 8.570 -30.158 5.470 -2.316 2.133 C19 A1JTR 34 A1JTR C23 C26 C 0 1 Y N N N N N 27.053 4.320 -26.247 -4.792 -3.380 -1.384 C23 A1JTR 35 A1JTR C25 C27 C 0 1 Y N N N N N 25.763 6.331 -26.304 -3.309 -1.517 -1.139 C25 A1JTR 36 A1JTR C27 C28 C 0 1 N N N N N N 26.608 5.370 -23.109 -4.619 -1.180 1.463 C27 A1JTR 37 A1JTR C29 C29 C 0 1 N N N N N N 24.323 4.969 -21.904 -4.255 0.694 3.076 C29 A1JTR 38 A1JTR C30 C30 C 0 1 N N N N N N 23.999 3.556 -22.410 -3.410 1.969 3.096 C30 A1JTR 39 A1JTR H1 H1 H 0 1 N N N N N N 15.644 6.241 -24.371 1.228 5.303 -3.331 H1 A1JTR 40 A1JTR H12 H2 H 0 1 N N N N N N 23.928 3.621 -24.530 -1.599 0.835 3.466 H12 A1JTR 41 A1JTR H5 H3 H 0 1 N N N N N N 17.151 8.182 -24.663 3.465 3.906 -3.678 H5 A1JTR 42 A1JTR H6 H4 H 0 1 N N N N N N 16.655 7.805 -26.348 3.657 5.439 -2.778 H6 A1JTR 43 A1JTR H7 H5 H 0 1 N N N N N N 19.726 5.070 -24.195 1.775 3.844 0.658 H7 A1JTR 44 A1JTR H8 H6 H 0 1 N N N N N N 19.000 3.567 -24.859 2.681 2.314 0.733 H8 A1JTR 45 A1JTR H9 H7 H 0 1 N N N N N N 20.403 3.965 -26.934 -0.249 2.558 -0.088 H9 A1JTR 46 A1JTR H11 H8 H 0 1 N N N N N N 20.984 2.206 -25.415 0.436 1.084 2.375 H11 A1JTR 47 A1JTR H14 H9 H 0 1 N N N N N N 23.211 7.395 -26.317 -0.633 -1.911 -0.441 H14 A1JTR 48 A1JTR H21 H10 H 0 1 N N N N N N 16.442 11.118 -29.124 4.820 -5.620 1.933 H21 A1JTR 49 A1JTR H24 H11 H 0 1 N N N N N N 20.415 8.267 -29.626 4.776 -0.839 0.753 H24 A1JTR 50 A1JTR H25 H12 H 0 1 N N N N N N 25.116 4.425 -29.011 -2.104 -3.718 -3.394 H25 A1JTR 51 A1JTR H26 H13 H 0 1 N N N N N N 26.782 2.995 -27.903 -4.185 -4.882 -2.779 H26 A1JTR 52 A1JTR H29 H14 H 0 1 N N N N N N 28.356 5.675 -24.319 -5.869 -0.655 -0.211 H29 A1JTR 53 A1JTR H30 H15 H 0 1 N N N N N N 27.223 7.068 -24.272 -6.181 -2.273 0.460 H30 A1JTR 54 A1JTR H33 H16 H 0 1 N N N N N N 25.262 6.836 -22.340 -3.870 0.775 0.958 H33 A1JTR 55 A1JTR H2 H17 H 0 1 N N N N N N 18.475 5.115 -26.928 2.171 1.940 -1.706 H2 A1JTR 56 A1JTR H3 H18 H 0 1 N N N N N N 19.240 7.160 -24.930 4.292 2.968 -1.685 H3 A1JTR 57 A1JTR H4 H19 H 0 1 N N N N N N 18.921 7.324 -26.690 3.717 4.345 -0.688 H4 A1JTR 58 A1JTR H10 H20 H 0 1 N N N N N N 21.752 6.035 -25.272 1.503 0.144 0.203 H10 A1JTR 59 A1JTR H13 H21 H 0 1 N N N N N N 23.276 2.283 -25.841 0.841 3.103 3.584 H13 A1JTR 60 A1JTR H15 H22 H 0 1 N N N N N N 22.387 8.556 -28.870 1.393 -1.454 -2.494 H15 A1JTR 61 A1JTR H16 H23 H 0 1 N N N N N N 23.823 6.351 -29.099 -1.420 -0.370 -2.836 H16 A1JTR 62 A1JTR H17 H24 H 0 1 N N N N N N 24.646 7.797 -28.423 -0.659 -1.933 -3.218 H17 A1JTR 63 A1JTR H18 H25 H 0 1 N N N N N N 20.708 11.244 -27.322 3.373 -3.126 -1.753 H18 A1JTR 64 A1JTR H19 H26 H 0 1 N N N N N N 21.646 10.729 -28.765 3.861 -1.449 -1.410 H19 A1JTR 65 A1JTR H20 H27 H 0 1 N N N N N N 18.530 11.718 -27.972 3.599 -4.856 -0.064 H20 A1JTR 66 A1JTR H22 H28 H 0 1 N N N N N N 16.341 9.107 -30.529 6.019 -3.993 3.340 H22 A1JTR 67 A1JTR H23 H29 H 0 1 N N N N N N 18.323 7.684 -30.774 5.997 -1.603 2.750 H23 A1JTR 68 A1JTR H27 H30 H 0 1 N N N N N N 27.771 3.677 -25.760 -5.704 -3.891 -1.115 H27 A1JTR 69 A1JTR H28 H31 H 0 1 N N N N N N 25.485 7.274 -25.858 -3.054 -0.581 -0.665 H28 A1JTR 70 A1JTR H31 H37 H 0 1 N N N N N N 26.571 4.280 -23.249 -5.088 -1.638 2.333 H31 A1JTR 71 A1JTR H35 H33 H 0 1 N N N N N N 24.849 4.866 -20.944 -5.170 0.855 3.645 H35 A1JTR 72 A1JTR H36 H38 H 0 1 N N N N N N 23.369 5.492 -21.745 -3.689 -0.125 3.521 H36 A1JTR 73 A1JTR H37 H35 H 0 1 N N N N N N 24.941 2.991 -22.471 -3.575 2.503 4.032 H37 A1JTR 74 A1JTR H38 H36 H 0 1 N N N N N N 23.331 3.077 -21.680 -3.685 2.605 2.255 H38 A1JTR 75 A1JTR H32 H32 H 0 1 N N N N N N 24.662 5.938 -23.776 -5.596 0.738 1.390 H32 A1JTR 76 A1JTR H34 H34 H 0 1 N N N N N N 27.227 5.606 -22.231 -3.595 -1.542 1.370 H34 A1JTR 77 # 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 A1JTR N1 C1 SING N N 1 A1JTR C1 C2 SING N N 2 A1JTR C2 C3 SING N N 3 A1JTR C3 C4 SING N N 4 A1JTR N1 C4 SING N N 5 A1JTR C2 C5 SING N N 6 A1JTR C5 C6 SING N N 7 A1JTR C6 N2 SING N N 8 A1JTR C6 C7 SING N N 9 A1JTR C7 C8 SING N N 10 A1JTR C8 O1 DOUB N N 11 A1JTR C8 N3 SING N N 12 A1JTR C7 O2 SING N N 13 A1JTR N2 C9 SING N N 14 A1JTR C9 C10 SING N N 15 A1JTR C10 N4 SING N N 16 A1JTR C10 C11 SING N N 17 A1JTR C11 C12 SING N N 18 A1JTR C9 O3 DOUB N N 19 A1JTR C1 O4 DOUB N N 20 A1JTR N4 C13 SING N N 21 A1JTR C13 C14 SING N N 22 A1JTR C14 C15 SING N N 23 A1JTR C13 O5 DOUB N N 24 A1JTR C15 C16 DOUB Y N 25 A1JTR C16 C17 SING Y N 26 A1JTR C17 C18 DOUB Y N 27 A1JTR C18 C19 SING Y N 28 A1JTR C19 C20 DOUB Y N 29 A1JTR C15 C20 SING Y N 30 A1JTR C12 C21 DOUB Y N 31 A1JTR C21 C22 SING Y N 32 A1JTR C22 C23 DOUB Y N 33 A1JTR C23 C24 SING Y N 34 A1JTR C24 C25 DOUB Y N 35 A1JTR C12 C25 SING Y N 36 A1JTR C24 C26 SING N N 37 A1JTR C26 C27 SING N N 38 A1JTR C27 C28 SING N N 39 A1JTR C28 C29 SING N N 40 A1JTR C29 C30 SING N N 41 A1JTR N3 C30 SING N N 42 A1JTR N1 H1 SING N N 43 A1JTR N3 H12 SING N N 44 A1JTR C4 H5 SING N N 45 A1JTR C4 H6 SING N N 46 A1JTR C5 H7 SING N N 47 A1JTR C5 H8 SING N N 48 A1JTR C6 H9 SING N N 49 A1JTR C7 H11 SING N N 50 A1JTR C10 H14 SING N N 51 A1JTR C17 H21 SING N N 52 A1JTR C20 H24 SING N N 53 A1JTR C21 H25 SING N N 54 A1JTR C22 H26 SING N N 55 A1JTR C26 H29 SING N N 56 A1JTR C26 H30 SING N N 57 A1JTR C28 H33 SING N N 58 A1JTR C2 H2 SING N N 59 A1JTR C3 H3 SING N N 60 A1JTR C3 H4 SING N N 61 A1JTR N2 H10 SING N N 62 A1JTR O2 H13 SING N N 63 A1JTR N4 H15 SING N N 64 A1JTR C11 H16 SING N N 65 A1JTR C11 H17 SING N N 66 A1JTR C14 H18 SING N N 67 A1JTR C14 H19 SING N N 68 A1JTR C16 H20 SING N N 69 A1JTR C18 H22 SING N N 70 A1JTR C19 H23 SING N N 71 A1JTR C23 H27 SING N N 72 A1JTR C25 H28 SING N N 73 A1JTR C27 H31 SING N N 74 A1JTR C29 H35 SING N N 75 A1JTR C29 H36 SING N N 76 A1JTR C30 H37 SING N N 77 A1JTR C30 H38 SING N N 78 A1JTR C28 H32 SING N N 79 A1JTR C27 H34 SING N N 80 # 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 A1JTR InChI InChI 1.06 "InChI=1S/C30H38N4O5/c35-26(18-21-9-3-1-4-10-21)33-25-17-22-12-7-11-20(16-22)8-5-2-6-14-31-30(39)27(36)24(34-29(25)38)19-23-13-15-32-28(23)37/h1,3-4,7,9-12,16,23-25,27,36H,2,5-6,8,13-15,17-19H2,(H,31,39)(H,32,37)(H,33,35)(H,34,38)/t23-,24+,25+,27+/m0/s1" A1JTR InChIKey InChI 1.06 SQZKEEYHZISICG-AMBDWCSGSA-N A1JTR SMILES_CANONICAL CACTVS 3.385 "O[C@@H]1[C@@H](C[C@@H]2CCNC2=O)NC(=O)[C@@H](Cc3cccc(CCCCCNC1=O)c3)NC(=O)Cc4ccccc4" A1JTR SMILES CACTVS 3.385 "O[CH]1[CH](C[CH]2CCNC2=O)NC(=O)[CH](Cc3cccc(CCCCCNC1=O)c3)NC(=O)Cc4ccccc4" A1JTR SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CC(=O)N[C@@H]2Cc3cccc(c3)CCCCCNC(=O)[C@@H]([C@H](NC2=O)C[C@@H]4CCNC4=O)O" A1JTR SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CC(=O)NC2Cc3cccc(c3)CCCCCNC(=O)C(C(NC2=O)CC4CCNC4=O)O" # _pdbx_chem_comp_identifier.comp_id A1JTR _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~{R},6~{R},7~{R})-7-oxidanyl-4,8-bis(oxidanylidene)-6-[[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]methyl]-5,9-diazabicyclo[13.3.1]nonadeca-1(18),15(19),16-trien-3-yl]-2-phenyl-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 A1JTR "Create component" 2025-11-05 PDBE A1JTR "Modify PCM" 2025-11-05 PDBE A1JTR "Modify coordinates" 2026-03-24 PDBE A1JTR "Modify PCM" 2026-04-14 PDBE A1JTR "Modify atom id" 2026-08-13 PDBE A1JTR "Initial release" 2026-08-19 RCSB # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1JTR _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 C7 _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 ? #