data_A1JTT # _chem_comp.id A1JTT _chem_comp.name "~{N}-[(3~{S},6~{S},7~{R},13~{Z})-7-oxidanyl-4,8-bis(oxidanylidene)-6-[[(3~{S})-2-oxidanylidenepyrrolidin-3-yl]methyl]-5,9-diazabicyclo[14.3.1]icosa-1(19),13,16(20),17-tetraen-3-yl]-2-phenyl-ethanamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C31 H40 N4 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms RK-452 _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 548.673 _chem_comp.one_letter_code ? _chem_comp.three_letter_code A1JTT _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 9T52 _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 A1JTT N1 N1 N 0 1 N N N N N N 25.324 15.604 8.937 1.466 -0.389 2.287 N1 A1JTT 1 A1JTT N3 N2 N 0 1 N N N N N N 25.966 17.064 12.968 4.081 -1.699 0.491 N3 A1JTT 2 A1JTT C4 C1 C 0 1 N N N N N N 26.732 17.921 7.041 -0.773 2.574 1.853 C4 A1JTT 3 A1JTT C5 C2 C 0 1 N N S N N N 25.638 16.848 6.901 -0.460 1.089 1.636 C5 A1JTT 4 A1JTT C6 C3 C 0 1 N N N N N N 24.861 16.614 8.192 0.696 0.684 2.504 C6 A1JTT 5 A1JTT C7 C4 C 0 1 Y N N N N N 26.604 20.784 9.582 1.555 4.013 -0.752 C7 A1JTT 6 A1JTT C8 C5 C 0 1 N N N N N N 27.317 21.202 10.847 2.997 3.884 -1.186 C8 A1JTT 7 A1JTT C10 C6 C 0 1 Y N N N N N 24.938 21.176 7.874 -0.602 5.011 -1.021 C10 A1JTT 8 A1JTT C13 C7 C 0 1 N N R N N N 26.043 15.473 11.192 2.122 -2.650 1.671 C13 A1JTT 9 A1JTT C15 C8 C 0 1 N N S N N N 22.840 13.980 9.455 0.654 -2.273 -0.909 C15 A1JTT 10 A1JTT C17 C9 C 0 1 N N N N N N 20.439 14.188 9.493 -0.428 -2.584 -3.027 C17 A1JTT 11 A1JTT C20 C10 C 0 1 N N N N N N 25.677 21.273 12.902 4.281 1.748 -1.047 C20 A1JTT 12 A1JTT C21 C11 C 0 1 N N N N N N 25.860 19.765 12.961 4.637 0.463 -1.793 C21 A1JTT 13 A1JTT C22 C12 C 0 1 N N N N N N 25.818 19.122 14.346 5.574 -0.381 -0.930 C22 A1JTT 14 A1JTT C24 C13 C 0 1 N N N N N N 23.738 16.242 5.517 -2.658 0.182 1.103 C24 A1JTT 15 A1JTT C26 C14 C 0 1 Y N N N N N 21.360 16.114 4.530 -4.891 -0.523 0.347 C26 A1JTT 16 A1JTT C28 C15 C 0 1 Y N N N N N 19.373 15.681 5.854 -5.767 -1.541 -1.635 C28 A1JTT 17 A1JTT C1 C16 C 0 1 Y N N N N N 25.310 20.010 7.230 -1.080 4.262 0.035 C1 A1JTT 18 A1JTT C2 C17 C 0 1 Y N N N N N 26.325 19.202 7.744 -0.239 3.385 0.697 C2 A1JTT 19 A1JTT C3 C18 C 0 1 Y N N N N N 26.953 19.609 8.921 1.078 3.260 0.303 C3 A1JTT 20 A1JTT C9 C19 C 0 1 Y N N N N N 25.583 21.561 9.039 0.714 4.888 -1.417 C9 A1JTT 21 A1JTT C11 C20 C 0 1 N N N N N N 26.471 22.016 11.827 3.213 2.513 -1.829 C11 A1JTT 22 A1JTT O1 O1 O 0 1 N N N N N N 23.890 17.300 8.518 0.947 1.369 3.489 O1 A1JTT 23 A1JTT C12 C21 C 0 1 N N S N N N 24.818 15.366 10.274 1.123 -1.511 1.424 C12 A1JTT 24 A1JTT C14 C22 C 0 1 N N N N N N 24.042 14.051 10.396 1.178 -1.117 -0.053 C14 A1JTT 25 A1JTT C16 C23 C 0 1 N N N N N N 21.708 14.957 9.759 0.846 -1.964 -2.412 C16 A1JTT 26 A1JTT N2 N3 N 0 1 N N N N N N 20.862 12.797 9.402 -1.424 -2.581 -1.949 N2 A1JTT 27 A1JTT C18 C24 C 0 1 N N N N N N 22.178 12.615 9.407 -0.844 -2.413 -0.748 C18 A1JTT 28 A1JTT O2 O2 O 0 1 N N N N N N 22.756 11.535 9.306 -1.435 -2.380 0.310 O2 A1JTT 29 A1JTT C19 C25 C 0 1 N N N N N N 25.636 15.831 12.585 3.139 -2.692 0.563 C19 A1JTT 30 A1JTT O3 O3 O 0 1 N N N N N N 24.985 15.035 13.226 3.136 -3.596 -0.248 O3 A1JTT 31 A1JTT C23 C26 C 0 1 N N N N N N 25.617 17.623 14.267 4.959 -1.763 -0.702 C23 A1JTT 32 A1JTT O4 O4 O 0 1 N N N N N N 26.926 16.492 10.761 1.418 -3.895 1.714 O4 A1JTT 33 A1JTT N4 N4 N 0 1 N N N N N N 24.691 17.140 5.838 -1.643 0.297 1.982 N4 A1JTT 34 A1JTT C25 C27 C 0 1 N N N N N N 22.766 16.663 4.403 -3.922 -0.535 1.501 C25 A1JTT 35 A1JTT O5 O5 O 0 1 N N N N N N 23.648 15.144 6.119 -2.554 0.657 -0.009 O5 A1JTT 36 A1JTT C27 C28 C 0 1 Y N N N N N 20.660 16.200 5.737 -4.875 -1.549 -0.580 C27 A1JTT 37 A1JTT C29 C29 C 0 1 Y N N N N N 18.761 15.088 4.761 -6.676 -0.507 -1.764 C29 A1JTT 38 A1JTT C30 C30 C 0 1 Y N N N N N 19.433 15.007 3.551 -6.692 0.519 -0.838 C30 A1JTT 39 A1JTT C31 C31 C 0 1 Y N N N N N 20.724 15.517 3.437 -5.799 0.511 0.218 C31 A1JTT 40 A1JTT H12 H1 H 0 1 N N N N N N 26.031 15.003 8.565 2.337 -0.417 2.747 H12 A1JTT 41 A1JTT H23 H2 H 0 1 N N N N N N 26.481 17.636 12.329 4.168 -1.008 1.164 H23 A1JTT 42 A1JTT H3 H3 H 0 1 N N N N N N 27.073 18.187 6.030 -1.856 2.702 1.914 H3 A1JTT 43 A1JTT H4 H4 H 0 1 N N N N N N 27.566 17.479 7.605 -0.317 2.914 2.780 H4 A1JTT 44 A1JTT H5 H5 H 0 1 N N N N N N 26.145 15.904 6.653 -0.221 0.940 0.584 H5 A1JTT 45 A1JTT H6 H6 H 0 1 N N N N N N 27.657 20.292 11.364 3.228 4.665 -1.909 H6 A1JTT 46 A1JTT H7 H7 H 0 1 N N N N N N 28.189 21.810 10.562 3.646 3.985 -0.317 H7 A1JTT 47 A1JTT H9 H8 H 0 1 N N N N N N 24.145 21.787 7.469 -1.259 5.697 -1.539 H9 A1JTT 48 A1JTT H14 H9 H 0 1 N N N N N N 26.559 14.502 11.205 2.625 -2.489 2.625 H14 A1JTT 49 A1JTT H17 H10 H 0 1 N N N N N N 23.204 14.205 8.442 1.155 -3.203 -0.643 H17 A1JTT 50 A1JTT H20 H39 H 0 1 N N N N N N 19.724 14.323 10.318 -0.776 -1.979 -3.864 H20 A1JTT 51 A1JTT H21 H12 H 0 1 N N N N N N 19.977 14.516 8.550 -0.231 -3.604 -3.356 H21 A1JTT 52 A1JTT H24 H13 H 0 1 N N N N N N 25.972 21.684 13.879 3.904 1.500 -0.056 H24 A1JTT 53 A1JTT H26 H14 H 0 1 N N N N N N 25.062 19.309 12.357 3.725 -0.095 -2.004 H26 A1JTT 54 A1JTT H27 H15 H 0 1 N N N N N N 26.837 19.530 12.514 5.130 0.714 -2.733 H27 A1JTT 55 A1JTT H28 H16 H 0 1 N N N N N N 26.768 19.327 14.862 6.535 -0.486 -1.436 H28 A1JTT 56 A1JTT H29 H17 H 0 1 N N N N N N 24.988 19.562 14.918 5.722 0.114 0.031 H29 A1JTT 57 A1JTT H37 H18 H 0 1 N N N N N N 18.851 15.741 6.798 -5.755 -2.342 -2.359 H37 A1JTT 58 A1JTT H1 H19 H 0 1 N N N N N N 24.809 19.721 6.318 -2.110 4.361 0.347 H1 A1JTT 59 A1JTT H2 H20 H 0 1 N N N N N N 27.737 18.992 9.334 1.737 2.577 0.819 H2 A1JTT 60 A1JTT H8 H21 H 0 1 N N N N N N 25.290 22.476 9.533 1.089 5.471 -2.246 H8 A1JTT 61 A1JTT H10 H22 H 0 1 N N N N N N 27.151 22.707 12.346 2.279 1.950 -1.811 H10 A1JTT 62 A1JTT H13 H23 H 0 1 N N N N N N 24.131 16.183 10.540 0.120 -1.871 1.666 H13 A1JTT 63 A1JTT H15 H24 H 0 1 N N N N N N 24.722 13.219 10.160 2.208 -0.897 -0.333 H15 A1JTT 64 A1JTT H16 H40 H 0 1 N N N N N N 23.684 13.950 11.431 0.560 -0.235 -0.217 H16 A1JTT 65 A1JTT H18 H26 H 0 1 N N N N N N 21.750 15.281 10.809 0.881 -0.888 -2.588 H18 A1JTT 66 A1JTT H19 H27 H 0 1 N N N N N N 21.771 15.837 9.101 1.742 -2.450 -2.798 H19 A1JTT 67 A1JTT H22 H28 H 0 1 N N N N N N 20.213 12.039 9.341 -2.378 -2.686 -2.086 H22 A1JTT 68 A1JTT H30 H29 H 0 1 N N N N N N 26.245 17.145 15.033 5.752 -2.492 -0.538 H30 A1JTT 69 A1JTT H31 H30 H 0 1 N N N N N N 24.559 17.401 14.470 4.374 -2.050 -1.577 H31 A1JTT 70 A1JTT H32 H31 H 0 1 N N N N N N 27.672 16.534 11.347 1.984 -4.662 1.873 H32 A1JTT 71 A1JTT H33 H32 H 0 1 N N N N N N 24.746 18.008 5.344 -1.695 -0.145 2.844 H33 A1JTT 72 A1JTT H34 H33 H 0 1 N N N N N N 22.703 17.761 4.403 -3.686 -1.566 1.767 H34 A1JTT 73 A1JTT H35 H34 H 0 1 N N N N N N 23.180 16.320 3.443 -4.371 -0.032 2.357 H35 A1JTT 74 A1JTT H36 H35 H 0 1 N N N N N N 21.123 16.675 6.589 -4.165 -2.356 -0.480 H36 A1JTT 75 A1JTT H38 H36 H 0 1 N N N N N N 17.761 14.689 4.852 -7.375 -0.502 -2.588 H38 A1JTT 76 A1JTT H39 H37 H 0 1 N N N N N N 18.956 14.549 2.697 -7.402 1.326 -0.938 H39 A1JTT 77 A1JTT H40 H38 H 0 1 N N N N N N 21.241 15.450 2.491 -5.812 1.312 0.942 H40 A1JTT 78 A1JTT H11 H11 H 0 1 N N N N N N 24.610 21.473 12.727 5.174 2.367 -0.951 H11 A1JTT 79 A1JTT H25 H25 H 0 1 N N N N N N 25.748 22.592 11.230 3.537 2.643 -2.861 H25 A1JTT 80 # 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 A1JTT C1 C2 DOUB Y N 1 A1JTT C2 C3 SING Y N 2 A1JTT C2 C4 SING N N 3 A1JTT C4 C5 SING N N 4 A1JTT C5 C6 SING N N 5 A1JTT C3 C7 DOUB Y N 6 A1JTT C7 C8 SING N N 7 A1JTT C7 C9 SING Y N 8 A1JTT C1 C10 SING Y N 9 A1JTT C9 C10 DOUB Y N 10 A1JTT C8 C11 SING N N 11 A1JTT C6 O1 DOUB N N 12 A1JTT C6 N1 SING N N 13 A1JTT N1 C12 SING N N 14 A1JTT C12 C13 SING N N 15 A1JTT C12 C14 SING N N 16 A1JTT C14 C15 SING N N 17 A1JTT C15 C16 SING N N 18 A1JTT C16 C17 SING N N 19 A1JTT C17 N2 SING N N 20 A1JTT N2 C18 SING N N 21 A1JTT C15 C18 SING N N 22 A1JTT C18 O2 DOUB N N 23 A1JTT C13 C19 SING N N 24 A1JTT C19 O3 DOUB N N 25 A1JTT C19 N3 SING N N 26 A1JTT C11 C20 SING N N 27 A1JTT C20 C21 SING N N 28 A1JTT C21 C22 SING N N 29 A1JTT C22 C23 SING N N 30 A1JTT N3 C23 SING N N 31 A1JTT C13 O4 SING N N 32 A1JTT C5 N4 SING N N 33 A1JTT N4 C24 SING N N 34 A1JTT C24 C25 SING N N 35 A1JTT C24 O5 DOUB N N 36 A1JTT C25 C26 SING N N 37 A1JTT C26 C27 DOUB Y N 38 A1JTT C27 C28 SING Y N 39 A1JTT C28 C29 DOUB Y N 40 A1JTT C29 C30 SING Y N 41 A1JTT C30 C31 DOUB Y N 42 A1JTT C26 C31 SING Y N 43 A1JTT N1 H12 SING N N 44 A1JTT N3 H23 SING N N 45 A1JTT C4 H3 SING N N 46 A1JTT C4 H4 SING N N 47 A1JTT C5 H5 SING N N 48 A1JTT C8 H6 SING N N 49 A1JTT C8 H7 SING N N 50 A1JTT C10 H9 SING N N 51 A1JTT C13 H14 SING N N 52 A1JTT C15 H17 SING N N 53 A1JTT C17 H20 SING N N 54 A1JTT C17 H21 SING N N 55 A1JTT C20 H24 SING N N 56 A1JTT C21 H26 SING N N 57 A1JTT C21 H27 SING N N 58 A1JTT C22 H28 SING N N 59 A1JTT C22 H29 SING N N 60 A1JTT C28 H37 SING N N 61 A1JTT C1 H1 SING N N 62 A1JTT C3 H2 SING N N 63 A1JTT C9 H8 SING N N 64 A1JTT C11 H10 SING N N 65 A1JTT C12 H13 SING N N 66 A1JTT C14 H15 SING N N 67 A1JTT C14 H16 SING N N 68 A1JTT C16 H18 SING N N 69 A1JTT C16 H19 SING N N 70 A1JTT N2 H22 SING N N 71 A1JTT C23 H30 SING N N 72 A1JTT C23 H31 SING N N 73 A1JTT O4 H32 SING N N 74 A1JTT N4 H33 SING N N 75 A1JTT C25 H34 SING N N 76 A1JTT C25 H35 SING N N 77 A1JTT C27 H36 SING N N 78 A1JTT C29 H38 SING N N 79 A1JTT C30 H39 SING N N 80 A1JTT C31 H40 SING N N 81 A1JTT C20 H11 SING N N 82 A1JTT C11 H25 SING N N 83 # 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 A1JTT InChI InChI 1.06 "InChI=1S/C31H40N4O5/c36-27(19-22-10-5-3-6-11-22)34-26-18-23-13-8-12-21(17-23)9-4-1-2-7-15-32-31(40)28(37)25(35-30(26)39)20-24-14-16-33-29(24)38/h3,5-6,8,10-13,17,24-26,28,37H,1-2,4,7,9,14-16,18-20H2,(H,32,40)(H,33,38)(H,34,36)(H,35,39)/t24-,25-,26-,28+/m0/s1" A1JTT InChIKey InChI 1.06 GOSDPJQRLKSNNB-KJNQLLBQSA-N A1JTT 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)Cc4ccccc4" A1JTT SMILES CACTVS 3.385 "O[CH]1[CH](C[CH]2CCNC2=O)NC(=O)[CH](Cc3cccc(CCCCCCNC1=O)c3)NC(=O)Cc4ccccc4" A1JTT SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CC(=O)N[C@H]2Cc3cccc(c3)CCCCCCNC(=O)[C@@H]([C@@H](NC2=O)C[C@@H]4CCNC4=O)O" A1JTT SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc(cc1)CC(=O)NC2Cc3cccc(c3)CCCCCCNC(=O)C(C(NC2=O)CC4CCNC4=O)O" # _pdbx_chem_comp_identifier.comp_id A1JTT _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]-2-phenyl-ethanamide" # _pdbx_chem_comp_synonyms.ordinal 1 _pdbx_chem_comp_synonyms.comp_id A1JTT _pdbx_chem_comp_synonyms.name RK-452 _pdbx_chem_comp_synonyms.provenance AUTHOR _pdbx_chem_comp_synonyms.type ? # _pdbx_chem_comp_pcm.pcm_id 1 _pdbx_chem_comp_pcm.comp_id A1JTT _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 C13 _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 ? # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site A1JTT "Create component" 2025-11-05 PDBE A1JTT "Modify PCM" 2025-11-05 PDBE A1JTT "Modify atom id" 2026-08-13 PDBE A1JTT "Initial release" 2026-08-19 RCSB #