data_K9D # _chem_comp.id K9D _chem_comp.name "5-[(3~{a}~{S},4~{S},6~{a}~{R})-2-oxidanylidene-1,3,3~{a},4,6,6~{a}-hexahydrothieno[3,4-d]imidazol-4-yl]-~{N}-[2-[6-(3,4-dihydro-1~{H}-isoquinolin-2-yl)-1,3-bis(oxidanylidene)benzo[de]isoquinolin-2-yl]ethyl]pentanamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C33 H35 N5 O4 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2022-05-23 _chem_comp.pdbx_modified_date 2022-08-22 _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 597.727 _chem_comp.one_letter_code ? _chem_comp.three_letter_code K9D _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 7ZX9 _chem_comp.pdbx_subcomponent_list ? _chem_comp.pdbx_processing_site PDBE # 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.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 K9D N1 N1 N 0 1 N N N 20.607 24.011 -14.249 -2.179 -1.534 0.593 N1 K9D 1 K9D C7 C1 C 0 1 Y N N 25.514 27.607 -14.845 3.616 -0.657 0.844 C7 K9D 2 K9D C8 C2 C 0 1 N N N 24.113 27.137 -14.840 2.266 -1.152 1.127 C8 K9D 3 K9D N2 N2 N 0 1 N N N 16.477 29.525 -7.606 -11.979 1.524 -0.830 N2 K9D 4 K9D C9 C3 C 0 1 N N N 22.420 25.607 -13.918 0.176 -2.183 0.473 C9 K9D 5 K9D O1 O1 O 0 1 N N N 14.279 29.391 -8.244 -10.771 3.081 -1.910 O1 K9D 6 K9D C1 C4 C 0 1 Y N N 26.151 25.754 -13.361 3.310 -1.350 -1.477 C1 K9D 7 K9D C5 C5 C 0 1 Y N N 27.851 27.334 -14.156 5.412 -0.305 -0.784 C5 K9D 8 K9D C6 C6 C 0 1 Y N N 26.501 26.896 -14.122 4.119 -0.769 -0.474 C6 K9D 9 K9D N3 N3 N 0 1 N N N 16.013 29.197 -9.721 -10.005 2.194 0.007 N3 K9D 10 K9D C4 C7 C 0 1 Y N N 28.795 26.594 -13.401 5.883 -0.429 -2.099 C4 K9D 11 K9D C3 C8 C 0 1 Y N N 28.410 25.552 -12.610 5.083 -0.997 -3.066 C3 K9D 12 K9D O3 O2 O 0 1 N N N 23.235 27.683 -15.484 1.814 -1.065 2.254 O3 K9D 13 K9D C2 C9 C 0 1 Y N N 27.095 25.115 -12.589 3.807 -1.456 -2.769 C2 K9D 14 K9D N4 N4 N 0 1 N N N 29.530 28.956 -14.972 7.469 0.735 -0.035 N4 K9D 15 K9D C21 C10 C 0 1 Y N N 25.851 28.740 -15.544 4.416 -0.090 1.832 C21 K9D 16 K9D C22 C11 C 0 1 Y N N 27.162 29.193 -15.569 5.685 0.366 1.528 C22 K9D 17 K9D C23 C12 C 0 1 Y N N 28.173 28.513 -14.908 6.197 0.272 0.242 C23 K9D 18 K9D C32 C13 C 0 1 N N N 30.080 29.957 -14.054 7.583 2.173 0.261 C32 K9D 19 K9D C31 C14 C 0 1 N N N 30.956 30.945 -14.802 8.858 2.704 -0.394 C31 K9D 20 K9D C30 C15 C 0 1 Y N N 31.883 30.277 -15.794 10.028 1.826 -0.029 C30 K9D 21 K9D C29 C16 C 0 1 Y N N 32.958 30.996 -16.317 11.309 2.320 -0.219 C29 K9D 22 K9D C28 C17 C 0 1 Y N N 33.766 30.449 -17.301 12.409 1.547 0.100 C28 K9D 23 K9D C27 C18 C 0 1 Y N N 33.520 29.180 -17.770 12.231 0.275 0.610 C27 K9D 24 K9D C26 C19 C 0 1 Y N N 32.468 28.441 -17.254 10.955 -0.216 0.801 C26 K9D 25 K9D C25 C20 C 0 1 Y N N 31.641 28.972 -16.263 9.850 0.559 0.483 C25 K9D 26 K9D C24 C21 C 0 1 N N N 30.497 28.140 -15.726 8.478 -0.018 0.717 C24 K9D 27 K9D N N5 N 0 1 N N N 23.829 25.997 -14.083 1.521 -1.701 0.149 N K9D 28 K9D C C22 C 0 1 N N N 24.765 25.261 -13.363 1.966 -1.822 -1.116 C K9D 29 K9D O O3 O 0 1 N N N 24.433 24.238 -12.823 1.253 -2.325 -1.963 O K9D 30 K9D C10 C23 C 0 1 N N N 21.958 24.372 -14.666 -0.834 -1.052 0.269 C10 K9D 31 K9D C11 C24 C 0 1 N N N 19.546 24.787 -14.444 -3.237 -0.707 0.480 C11 K9D 32 K9D O2 O4 O 0 1 N N N 19.589 25.850 -15.069 -3.075 0.439 0.116 O2 K9D 33 K9D C12 C25 C 0 1 N N N 18.254 24.292 -13.855 -4.621 -1.205 0.807 C12 K9D 34 K9D C13 C26 C 0 1 N N N 17.489 25.400 -13.153 -5.632 -0.075 0.598 C13 K9D 35 K9D C14 C27 C 0 1 N N N 18.284 26.051 -12.027 -7.038 -0.581 0.930 C14 K9D 36 K9D C15 C28 C 0 1 N N N 17.529 27.202 -11.386 -8.048 0.549 0.721 C15 K9D 37 K9D C16 C29 C 0 1 N N S 18.121 27.842 -10.147 -9.454 0.043 1.053 C16 K9D 38 K9D C19 C30 C 0 1 N N S 17.459 29.159 -9.714 -10.480 1.190 0.973 C19 K9D 39 K9D C18 C31 C 0 1 N N R 17.795 29.400 -8.206 -11.826 0.731 0.400 C18 K9D 40 K9D C17 C32 C 0 1 N N N 18.595 28.193 -7.695 -11.830 -0.768 0.040 C17 K9D 41 K9D S S1 S 0 1 N N N 17.969 26.810 -8.655 -10.047 -1.122 -0.240 S K9D 42 K9D C20 C33 C 0 1 N N N 15.479 29.399 -8.504 -10.908 2.317 -0.975 C20 K9D 43 K9D H10 H1 H 0 1 N N N 20.472 23.132 -13.792 -2.309 -2.450 0.884 H10 K9D 44 K9D H21 H2 H 0 1 N N N 16.326 29.687 -6.631 -12.731 1.477 -1.440 H21 K9D 45 K9D H7 H3 H 0 1 N N N 21.800 26.451 -14.255 -0.078 -3.018 -0.180 H7 K9D 46 K9D H6 H4 H 0 1 N N N 22.247 25.430 -12.846 0.148 -2.512 1.511 H6 K9D 47 K9D H22 H5 H 0 1 N N N 15.465 29.084 -10.550 -9.172 2.686 0.071 H22 K9D 48 K9D H5 H6 H 0 1 N N N 29.840 26.861 -13.453 6.872 -0.079 -2.355 H5 K9D 49 K9D H4 H7 H 0 1 N N N 29.143 25.059 -11.989 5.456 -1.087 -4.075 H4 K9D 50 K9D H3 H8 H 0 1 N N N 26.812 24.277 -11.970 3.200 -1.898 -3.545 H3 K9D 51 K9D H23 H9 H 0 1 N N N 25.087 29.284 -16.080 4.042 -0.004 2.842 H23 K9D 52 K9D H24 H10 H 0 1 N N N 27.400 30.094 -16.115 6.291 0.804 2.308 H24 K9D 53 K9D H34 H11 H 0 1 N N N 29.253 30.500 -13.573 6.718 2.699 -0.143 H34 K9D 54 K9D H33 H12 H 0 1 N N N 30.682 29.450 -13.285 7.632 2.322 1.339 H33 K9D 55 K9D H32 H13 H 0 1 N N N 31.564 31.498 -14.071 8.734 2.708 -1.477 H32 K9D 56 K9D H31 H14 H 0 1 N N N 30.307 31.647 -15.346 9.047 3.720 -0.048 H31 K9D 57 K9D H30 H15 H 0 1 N N N 33.163 31.991 -15.951 11.449 3.314 -0.618 H30 K9D 58 K9D H29 H16 H 0 1 N N N 34.591 31.021 -17.700 13.405 1.936 -0.050 H29 K9D 59 K9D H28 H17 H 0 1 N N N 34.148 28.759 -18.541 13.088 -0.333 0.859 H28 K9D 60 K9D H27 H18 H 0 1 N N N 32.286 27.442 -17.623 10.817 -1.211 1.199 H27 K9D 61 K9D H25 H19 H 0 1 N N N 29.978 27.663 -16.570 8.244 0.027 1.780 H25 K9D 62 K9D H26 H20 H 0 1 N N N 30.903 27.365 -15.060 8.465 -1.059 0.393 H26 K9D 63 K9D H9 H21 H 0 1 N N N 22.641 23.538 -14.449 -0.807 -0.723 -0.770 H9 K9D 64 K9D H8 H22 H 0 1 N N N 21.963 24.578 -15.747 -0.581 -0.217 0.922 H8 K9D 65 K9D H11 H23 H 0 1 N N N 17.628 23.885 -14.663 -4.871 -2.041 0.154 H11 K9D 66 K9D H12 H24 H 0 1 N N N 18.476 23.498 -13.127 -4.653 -1.533 1.846 H12 K9D 67 K9D H13 H25 H 0 1 N N N 17.232 26.172 -13.893 -5.383 0.761 1.252 H13 K9D 68 K9D H14 H26 H 0 1 N N N 16.566 24.976 -12.731 -5.600 0.253 -0.440 H14 K9D 69 K9D H15 H27 H 0 1 N N N 18.495 25.293 -11.258 -7.287 -1.417 0.277 H15 K9D 70 K9D H16 H28 H 0 1 N N N 19.231 26.432 -12.436 -7.069 -0.910 1.969 H16 K9D 71 K9D H17 H29 H 0 1 N N N 17.430 27.991 -12.146 -7.799 1.385 1.375 H17 K9D 72 K9D H18 H30 H 0 1 N N N 16.531 26.827 -11.115 -8.016 0.877 -0.317 H18 K9D 73 K9D H H31 H 0 1 N N N 19.198 28.008 -10.297 -9.472 -0.424 2.038 H K9D 74 K9D H2 H32 H 0 1 N N N 17.871 29.987 -10.309 -10.617 1.646 1.954 H2 K9D 75 K9D H1 H33 H 0 1 N N N 18.381 30.324 -8.094 -12.632 0.958 1.098 H1 K9D 76 K9D H19 H34 H 0 1 N N N 18.418 28.034 -6.621 -12.217 -1.363 0.868 H19 K9D 77 K9D H20 H35 H 0 1 N N N 19.671 28.335 -7.872 -12.410 -0.947 -0.865 H20 K9D 78 # 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 K9D C27 C28 DOUB Y N 1 K9D C27 C26 SING Y N 2 K9D C28 C29 SING Y N 3 K9D C26 C25 DOUB Y N 4 K9D C29 C30 DOUB Y N 5 K9D C25 C30 SING Y N 6 K9D C25 C24 SING N N 7 K9D C30 C31 SING N N 8 K9D C24 N4 SING N N 9 K9D C22 C21 DOUB Y N 10 K9D C22 C23 SING Y N 11 K9D C21 C7 SING Y N 12 K9D O3 C8 DOUB N N 13 K9D O2 C11 DOUB N N 14 K9D N4 C23 SING N N 15 K9D N4 C32 SING N N 16 K9D C23 C5 DOUB Y N 17 K9D C7 C8 SING N N 18 K9D C7 C6 DOUB Y N 19 K9D C8 N SING N N 20 K9D C31 C32 SING N N 21 K9D C10 N1 SING N N 22 K9D C10 C9 SING N N 23 K9D C11 N1 SING N N 24 K9D C11 C12 SING N N 25 K9D C5 C6 SING Y N 26 K9D C5 C4 SING Y N 27 K9D C6 C1 SING Y N 28 K9D N C9 SING N N 29 K9D N C SING N N 30 K9D C12 C13 SING N N 31 K9D C4 C3 DOUB Y N 32 K9D C C1 SING N N 33 K9D C O DOUB N N 34 K9D C1 C2 DOUB Y N 35 K9D C13 C14 SING N N 36 K9D C3 C2 SING Y N 37 K9D C14 C15 SING N N 38 K9D C15 C16 SING N N 39 K9D C16 C19 SING N N 40 K9D C16 S SING N N 41 K9D N3 C19 SING N N 42 K9D N3 C20 SING N N 43 K9D C19 C18 SING N N 44 K9D S C17 SING N N 45 K9D C20 O1 DOUB N N 46 K9D C20 N2 SING N N 47 K9D C18 C17 SING N N 48 K9D C18 N2 SING N N 49 K9D N1 H10 SING N N 50 K9D N2 H21 SING N N 51 K9D C9 H7 SING N N 52 K9D C9 H6 SING N N 53 K9D N3 H22 SING N N 54 K9D C4 H5 SING N N 55 K9D C3 H4 SING N N 56 K9D C2 H3 SING N N 57 K9D C21 H23 SING N N 58 K9D C22 H24 SING N N 59 K9D C32 H34 SING N N 60 K9D C32 H33 SING N N 61 K9D C31 H32 SING N N 62 K9D C31 H31 SING N N 63 K9D C29 H30 SING N N 64 K9D C28 H29 SING N N 65 K9D C27 H28 SING N N 66 K9D C26 H27 SING N N 67 K9D C24 H25 SING N N 68 K9D C24 H26 SING N N 69 K9D C10 H9 SING N N 70 K9D C10 H8 SING N N 71 K9D C12 H11 SING N N 72 K9D C12 H12 SING N N 73 K9D C13 H13 SING N N 74 K9D C13 H14 SING N N 75 K9D C14 H15 SING N N 76 K9D C14 H16 SING N N 77 K9D C15 H17 SING N N 78 K9D C15 H18 SING N N 79 K9D C16 H SING N N 80 K9D C19 H2 SING N N 81 K9D C18 H1 SING N N 82 K9D C17 H19 SING N N 83 K9D C17 H20 SING N N 84 # 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 K9D InChI InChI 1.06 "InChI=1S/C33H35N5O4S/c39-28(11-4-3-10-27-30-25(19-43-27)35-33(42)36-30)34-15-17-38-31(40)23-9-5-8-22-26(13-12-24(29(22)23)32(38)41)37-16-14-20-6-1-2-7-21(20)18-37/h1-2,5-9,12-13,25,27,30H,3-4,10-11,14-19H2,(H,34,39)(H2,35,36,42)/t25-,27-,30-/m0/s1" K9D InChIKey InChI 1.06 OIYWBNMJMDVZAF-XXJPWZBZSA-N K9D SMILES_CANONICAL CACTVS 3.385 "O=C(CCCC[C@@H]1SC[C@@H]2NC(=O)N[C@H]12)NCCN3C(=O)c4cccc5c(ccc(C3=O)c45)N6CCc7ccccc7C6" K9D SMILES CACTVS 3.385 "O=C(CCCC[CH]1SC[CH]2NC(=O)N[CH]12)NCCN3C(=O)c4cccc5c(ccc(C3=O)c45)N6CCc7ccccc7C6" K9D SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "c1ccc2c(c1)CCN(C2)c3ccc4c5c3cccc5C(=O)N(C4=O)CCNC(=O)CCCC[C@H]6[C@@H]7[C@H](CS6)NC(=O)N7" K9D SMILES "OpenEye OEToolkits" 2.0.7 "c1ccc2c(c1)CCN(C2)c3ccc4c5c3cccc5C(=O)N(C4=O)CCNC(=O)CCCCC6C7C(CS6)NC(=O)N7" # _pdbx_chem_comp_identifier.comp_id K9D _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 "5-[(3~{a}~{S},4~{S},6~{a}~{R})-2-oxidanylidene-1,3,3~{a},4,6,6~{a}-hexahydrothieno[3,4-d]imidazol-4-yl]-~{N}-[2-[6-(3,4-dihydro-1~{H}-isoquinolin-2-yl)-1,3-bis(oxidanylidene)benzo[de]isoquinolin-2-yl]ethyl]pentanamide" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site K9D "Create component" 2022-05-23 PDBE K9D "Initial release" 2022-06-15 RCSB K9D "Modify descriptor" 2022-08-22 RCSB #