data_N9O # _chem_comp.id N9O _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-(dimethylamino)-1,3-bis(oxidanylidene)benzo[de]isoquinolin-2-yl]ethyl]pentanamide" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C26 H31 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 2022-08-15 _chem_comp.pdbx_modified_date 2023-09-23 _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 509.620 _chem_comp.one_letter_code ? _chem_comp.three_letter_code N9O _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 8AQJ _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 N9O N1 N1 N 0 1 N N N 16.227 29.621 -7.310 -10.123 -1.535 -0.401 N1 N9O 1 N9O C7 C1 C 0 1 N N N 17.290 25.562 -12.913 -3.775 0.613 -0.203 C7 N9O 2 N9O C8 C2 C 0 1 N N N 18.049 24.439 -13.598 -2.693 1.309 0.625 C8 N9O 3 N9O N2 N2 N 0 1 N N N 20.348 24.188 -14.273 -0.223 1.324 0.762 N2 N9O 4 N9O C9 C3 C 0 1 N N N 19.260 24.960 -14.306 -1.334 0.841 0.171 C9 N9O 5 N9O O1 O1 O 0 1 N N N 24.005 24.149 -17.228 3.436 -0.548 2.178 O1 N9O 6 N9O C1 C4 C 0 1 N N S 17.197 29.355 -9.460 -8.724 0.278 -1.004 C1 N9O 7 N9O C5 C5 C 0 1 N N N 17.245 27.330 -11.115 -6.237 0.391 -0.569 C5 N9O 8 N9O C6 C6 C 0 1 N N N 17.980 26.089 -11.610 -5.155 1.088 0.258 C6 N9O 9 N9O N3 N3 N 0 1 N N N 24.038 24.287 -14.961 3.500 1.111 0.707 N3 N9O 10 N9O C4 C7 C 0 1 N N S 17.890 28.065 -9.946 -7.616 0.866 -0.108 C4 N9O 11 N9O C3 C8 C 0 1 N N N 18.311 28.247 -7.487 -9.842 0.222 1.292 C3 N9O 12 N9O O3 O2 O 0 1 N N N 19.237 26.071 -14.845 -1.241 0.031 -0.726 O3 N9O 13 N9O C2 C9 C 0 1 N N R 17.538 29.482 -7.930 -9.986 -0.082 -0.212 C2 N9O 14 N9O N4 N4 N 0 1 N N N 30.314 25.233 -16.320 9.140 -1.794 -0.345 N4 N9O 15 N9O N N5 N 0 1 N N N 15.739 29.315 -9.464 -8.272 -1.007 -1.559 N N9O 16 N9O S S1 S 0 1 N N N 17.942 26.856 -8.558 -8.024 0.175 1.546 S N9O 17 N9O C C10 C 0 1 N N N 15.202 29.467 -8.209 -9.116 -1.973 -1.168 C N9O 18 N9O O O3 O 0 1 N N N 13.998 29.383 -7.933 -8.980 -3.139 -1.484 O N9O 19 N9O C10 C11 C 0 1 N N N 21.655 24.709 -14.657 1.097 0.869 0.321 C10 N9O 20 N9O C11 C12 C 0 1 N N N 22.699 23.654 -14.895 2.179 1.566 1.148 C11 N9O 21 N9O C20 C13 C 0 1 N N N 24.650 24.356 -16.220 4.044 0.030 1.296 C20 N9O 22 N9O C19 C14 C 0 1 Y N N 26.085 24.710 -16.253 5.364 -0.457 0.883 C19 N9O 23 N9O C18 C15 C 0 1 Y N N 26.765 25.031 -15.047 6.051 0.231 -0.143 C18 N9O 24 N9O C13 C16 C 0 1 Y N N 26.090 24.985 -13.799 5.452 1.363 -0.742 C13 N9O 25 N9O C12 C17 C 0 1 N N N 24.661 24.609 -13.744 4.123 1.787 -0.277 C12 N9O 26 N9O O2 O4 O 0 1 N N N 24.048 24.516 -12.697 3.586 2.755 -0.780 O2 N9O 27 N9O C21 C18 C 0 1 Y N N 26.783 24.627 -17.442 5.956 -1.572 1.471 C21 N9O 28 N9O C22 C19 C 0 1 Y N N 28.148 24.855 -17.485 7.202 -2.002 1.056 C22 N9O 29 N9O C23 C20 C 0 1 Y N N 28.856 25.172 -16.331 7.895 -1.343 0.051 C23 N9O 30 N9O C25 C21 C 0 1 N N N 30.983 24.144 -15.617 10.089 -1.773 0.776 C25 N9O 31 N9O C24 C22 C 0 1 N N N 31.039 26.140 -17.206 9.051 -3.137 -0.933 C24 N9O 32 N9O C17 C23 C 0 1 Y N N 28.162 25.294 -15.077 7.322 -0.206 -0.567 C17 N9O 33 N9O C16 C24 C 0 1 Y N N 28.814 25.561 -13.838 7.979 0.496 -1.587 C16 N9O 34 N9O C15 C25 C 0 1 Y N N 28.148 25.461 -12.659 7.382 1.597 -2.159 C15 N9O 35 N9O C14 C26 C 0 1 Y N N 26.793 25.169 -12.628 6.130 2.036 -1.749 C14 N9O 36 N9O H1 H1 H 0 1 N N N 16.089 29.808 -6.337 -10.828 -2.087 -0.028 H1 N9O 37 N9O H2 H2 H 0 1 N N N 17.198 26.400 -13.620 -3.640 0.857 -1.256 H2 N9O 38 N9O H3 H3 H 0 1 N N N 16.288 25.193 -12.650 -3.698 -0.466 -0.067 H3 N9O 39 N9O H4 H4 H 0 1 N N N 17.387 23.952 -14.329 -2.770 2.388 0.489 H4 N9O 40 N9O H5 H5 H 0 1 N N N 18.363 23.704 -12.842 -2.828 1.065 1.679 H5 N9O 41 N9O H6 H6 H 0 1 N N N 20.266 23.235 -13.980 -0.298 1.972 1.480 H6 N9O 42 N9O H7 H7 H 0 1 N N N 17.582 30.228 -10.007 -8.968 0.974 -1.808 H7 N9O 43 N9O H8 H8 H 0 1 N N N 17.170 28.035 -11.956 -6.102 0.636 -1.623 H8 N9O 44 N9O H9 H9 H 0 1 N N N 16.236 27.022 -10.804 -6.160 -0.688 -0.434 H9 N9O 45 N9O H10 H10 H 0 1 N N N 17.946 25.309 -10.835 -5.290 0.843 1.312 H10 N9O 46 N9O H11 H11 H 0 1 N N N 19.028 26.345 -11.827 -5.232 2.167 0.123 H11 N9O 47 N9O H12 H12 H 0 1 N N N 18.939 28.289 -10.190 -7.665 1.955 -0.098 H12 N9O 48 N9O H13 H13 H 0 1 N N N 18.028 27.994 -6.455 -10.231 1.213 1.525 H13 N9O 49 N9O H14 H14 H 0 1 N N N 19.389 28.460 -7.530 -10.344 -0.539 1.890 H14 N9O 50 N9O H15 H15 H 0 1 N N N 18.146 30.384 -7.767 -10.852 0.436 -0.625 H15 N9O 51 N9O H16 H16 H 0 1 N N N 15.190 29.190 -10.291 -7.489 -1.136 -2.117 H16 N9O 52 N9O H17 H17 H 0 1 N N N 22.011 25.370 -13.853 1.174 -0.210 0.456 H17 N9O 53 N9O H18 H18 H 0 1 N N N 21.535 25.290 -15.584 1.232 1.113 -0.733 H18 N9O 54 N9O H19 H19 H 0 1 N N N 22.490 23.139 -15.844 2.044 1.321 2.202 H19 N9O 55 N9O H20 H20 H 0 1 N N N 22.678 22.926 -14.071 2.102 2.644 1.013 H20 N9O 56 N9O H21 H21 H 0 1 N N N 26.256 24.381 -18.352 5.438 -2.104 2.256 H21 N9O 57 N9O H22 H22 H 0 1 N N N 28.670 24.786 -18.428 7.646 -2.868 1.524 H22 N9O 58 N9O H23 H23 H 0 1 N N N 30.249 23.593 -15.010 9.721 -2.417 1.575 H23 N9O 59 N9O H24 H24 H 0 1 N N N 31.440 23.461 -16.349 11.060 -2.132 0.438 H24 N9O 60 N9O H25 H25 H 0 1 N N N 31.765 24.556 -14.962 10.189 -0.753 1.148 H25 N9O 61 N9O H26 H26 H 0 1 N N N 32.121 26.029 -17.039 8.646 -3.830 -0.196 H26 N9O 62 N9O H27 H27 H 0 1 N N N 30.803 25.897 -18.252 8.396 -3.109 -1.804 H27 N9O 63 N9O H28 H28 H 0 1 N N N 30.740 27.177 -16.994 10.044 -3.468 -1.236 H28 N9O 64 N9O H29 H29 H 0 1 N N N 29.855 25.848 -13.837 8.953 0.174 -1.924 H29 N9O 65 N9O H30 H30 H 0 1 N N N 28.681 25.611 -11.732 7.897 2.130 -2.945 H30 N9O 66 N9O H31 H31 H 0 1 N N N 26.285 25.085 -11.679 5.683 2.901 -2.214 H31 N9O 67 # 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 N9O C22 C21 DOUB Y N 1 N9O C22 C23 SING Y N 2 N9O C21 C19 SING Y N 3 N9O O1 C20 DOUB N N 4 N9O C24 N4 SING N N 5 N9O C23 N4 SING N N 6 N9O C23 C17 DOUB Y N 7 N9O N4 C25 SING N N 8 N9O C19 C20 SING N N 9 N9O C19 C18 DOUB Y N 10 N9O C20 N3 SING N N 11 N9O C17 C18 SING Y N 12 N9O C17 C16 SING Y N 13 N9O C18 C13 SING Y N 14 N9O N3 C11 SING N N 15 N9O N3 C12 SING N N 16 N9O C11 C10 SING N N 17 N9O O3 C9 DOUB N N 18 N9O C10 N2 SING N N 19 N9O C9 N2 SING N N 20 N9O C9 C8 SING N N 21 N9O C16 C15 DOUB Y N 22 N9O C13 C12 SING N N 23 N9O C13 C14 DOUB Y N 24 N9O C12 O2 DOUB N N 25 N9O C8 C7 SING N N 26 N9O C7 C6 SING N N 27 N9O C15 C14 SING Y N 28 N9O C6 C5 SING N N 29 N9O C5 C4 SING N N 30 N9O C4 C1 SING N N 31 N9O C4 S SING N N 32 N9O N C1 SING N N 33 N9O N C SING N N 34 N9O C1 C2 SING N N 35 N9O S C3 SING N N 36 N9O C O DOUB N N 37 N9O C N1 SING N N 38 N9O C2 C3 SING N N 39 N9O C2 N1 SING N N 40 N9O N1 H1 SING N N 41 N9O C7 H2 SING N N 42 N9O C7 H3 SING N N 43 N9O C8 H4 SING N N 44 N9O C8 H5 SING N N 45 N9O N2 H6 SING N N 46 N9O C1 H7 SING N N 47 N9O C5 H8 SING N N 48 N9O C5 H9 SING N N 49 N9O C6 H10 SING N N 50 N9O C6 H11 SING N N 51 N9O C4 H12 SING N N 52 N9O C3 H13 SING N N 53 N9O C3 H14 SING N N 54 N9O C2 H15 SING N N 55 N9O N H16 SING N N 56 N9O C10 H17 SING N N 57 N9O C10 H18 SING N N 58 N9O C11 H19 SING N N 59 N9O C11 H20 SING N N 60 N9O C21 H21 SING N N 61 N9O C22 H22 SING N N 62 N9O C25 H23 SING N N 63 N9O C25 H24 SING N N 64 N9O C25 H25 SING N N 65 N9O C24 H26 SING N N 66 N9O C24 H27 SING N N 67 N9O C24 H28 SING N N 68 N9O C16 H29 SING N N 69 N9O C15 H30 SING N N 70 N9O C14 H31 SING N N 71 # 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 N9O InChI InChI 1.06 "InChI=1S/C26H31N5O4S/c1-30(2)19-11-10-17-22-15(19)6-5-7-16(22)24(33)31(25(17)34)13-12-27-21(32)9-4-3-8-20-23-18(14-36-20)28-26(35)29-23/h5-7,10-11,18,20,23H,3-4,8-9,12-14H2,1-2H3,(H,27,32)(H2,28,29,35)/t18-,20-,23-/m0/s1" N9O InChIKey InChI 1.06 WAGQBAHKYBJEAZ-LEDOBFOHSA-N N9O SMILES_CANONICAL CACTVS 3.385 "CN(C)c1ccc2C(=O)N(CCNC(=O)CCCC[C@@H]3SC[C@@H]4NC(=O)N[C@H]34)C(=O)c5cccc1c25" N9O SMILES CACTVS 3.385 "CN(C)c1ccc2C(=O)N(CCNC(=O)CCCC[CH]3SC[CH]4NC(=O)N[CH]34)C(=O)c5cccc1c25" N9O SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "CN(C)c1ccc2c3c1cccc3C(=O)N(C2=O)CCNC(=O)CCCC[C@H]4[C@@H]5[C@H](CS4)NC(=O)N5" N9O SMILES "OpenEye OEToolkits" 2.0.7 "CN(C)c1ccc2c3c1cccc3C(=O)N(C2=O)CCNC(=O)CCCCC4C5C(CS4)NC(=O)N5" # _pdbx_chem_comp_identifier.comp_id N9O _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-(dimethylamino)-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 N9O "Create component" 2022-08-15 PDBE N9O "Initial release" 2022-08-31 RCSB N9O "Modify descriptor" 2023-09-23 RCSB #