data_YRC # _chem_comp.id YRC _chem_comp.name "7-[(1~{S})-1-[2-(aminomethyl)-6-oxidanylidene-5-oxa-7-azaspiro[3.4]octan-7-yl]ethyl]-3-(1-oxidanylidene-2,3-dihydroisoindol-5-yl)-1~{H}-indole-2-carboxylic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C26 H26 N4 O5" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-06-20 _chem_comp.pdbx_modified_date 2024-07-05 _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 474.508 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YRC _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 8PGS _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.pdbx_backbone_atom_flag _chem_comp_atom.pdbx_n_terminal_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 YRC C11 C1 C 0 1 Y N N N N N -21.254 -12.132 8.451 3.175 0.221 -0.226 C11 YRC 1 YRC C13 C2 C 0 1 Y N N N N N -19.782 -11.278 6.728 5.506 0.800 -0.322 C13 YRC 2 YRC C15 C3 C 0 1 N N N N N N -19.750 -12.617 4.668 7.105 -0.929 0.842 C15 YRC 3 YRC C18 C4 C 0 1 N N N N N N -21.122 -14.311 5.117 5.461 -2.370 1.513 C18 YRC 4 YRC C19 C5 C 0 1 Y N N N N N -21.114 -13.345 6.379 4.796 -1.228 0.786 C19 YRC 5 YRC C23 C6 C 0 1 Y N N N N N -21.878 -14.896 12.120 0.296 3.656 1.084 C23 YRC 6 YRC C24 C7 C 0 1 Y N N N N N -22.422 -14.218 13.264 -0.966 3.547 0.515 C24 YRC 7 YRC C26 C8 C 0 1 N N N N N N -25.579 -13.421 14.838 -3.990 0.164 -0.904 C26 YRC 8 YRC C01 C9 C 0 1 N N N N N N -22.695 -12.390 15.721 -3.369 3.739 -0.793 C01 YRC 9 YRC C02 C10 C 0 1 N N S N N N -23.231 -12.041 14.408 -2.641 2.402 -0.945 C02 YRC 10 YRC C03 C11 C 0 1 Y N N N N N -22.686 -12.868 13.209 -1.266 2.507 -0.336 C03 YRC 11 YRC C04 C12 C 0 1 Y N N N N N -22.421 -12.227 12.017 -0.296 1.553 -0.634 C04 YRC 12 YRC C06 C13 C 0 1 Y N N N N N -22.212 -10.738 10.446 0.930 -0.186 -1.387 C06 YRC 13 YRC C07 C14 C 0 1 N N N N N N -22.412 -9.324 9.771 1.295 -1.409 -2.110 C07 YRC 14 YRC C10 C15 C 0 1 Y N N N N N -21.782 -11.895 9.884 1.768 0.534 -0.552 C10 YRC 15 YRC C12 C16 C 0 1 Y N N N N N -20.265 -11.170 7.927 4.195 1.089 -0.624 C12 YRC 16 YRC C14 C17 C 0 1 Y N N N N N -20.152 -12.341 5.911 5.821 -0.365 0.384 C14 YRC 17 YRC C20 C18 C 0 1 Y N N N N N -21.658 -13.224 7.726 3.488 -0.942 0.486 C20 YRC 18 YRC C21 C19 C 0 1 Y N N N N N -21.901 -12.845 10.876 0.982 1.669 -0.055 C21 YRC 19 YRC C22 C20 C 0 1 Y N N N N N -21.576 -14.273 10.943 1.263 2.733 0.806 C22 YRC 20 YRC C27 C21 C 0 1 N N N N N N -26.924 -13.144 14.541 -4.654 -0.575 0.263 C27 YRC 21 YRC C28 C22 C 0 1 N N N N N N -27.885 -14.050 14.125 -6.111 -0.980 0.047 C28 YRC 22 YRC C29 C23 C 0 1 N N N N N N -28.845 -13.520 15.166 -5.776 -2.271 0.815 C29 YRC 23 YRC C30 C24 C 0 1 N N N N N N -29.709 -14.454 16.161 -6.416 -3.524 0.214 C30 YRC 24 YRC C32 C25 C 0 1 N N N N N N -27.764 -12.826 15.717 -4.313 -2.059 0.385 C32 YRC 25 YRC C34 C26 C 0 1 N N N N N N -25.637 -11.499 13.534 -3.669 1.314 1.052 C34 YRC 26 YRC N05 N1 N 0 1 Y N N N N N -22.568 -10.914 11.674 -0.301 0.431 -1.429 N05 YRC 27 YRC N17 N2 N 0 1 N N N N N N -20.306 -13.789 4.091 6.900 -2.088 1.491 N17 YRC 28 YRC N25 N3 N 0 1 N N N N N N -24.773 -12.236 14.374 -3.399 1.352 -0.261 N25 YRC 29 YRC N31 N4 N 0 1 N N N N N N -30.668 -15.412 15.324 -6.138 -4.679 1.080 N31 YRC 30 YRC O08 O1 O 0 1 N N N N N N -22.835 -9.328 8.576 2.415 -1.869 -2.001 O08 YRC 31 YRC O09 O2 O 0 1 N N N N N N -22.338 -8.337 10.488 0.387 -2.023 -2.897 O09 YRC 32 YRC O16 O3 O 0 1 N N N N N N -18.932 -11.948 4.014 8.193 -0.419 0.657 O16 YRC 33 YRC O33 O4 O 0 1 N N N N N N -26.857 -11.929 13.521 -4.383 0.242 1.427 O33 YRC 34 YRC O35 O5 O 0 1 N N N N N N -25.206 -10.534 12.806 -3.302 2.171 1.831 O35 YRC 35 YRC H131 H1 H 0 0 N N N N N N -19.087 -10.537 6.361 6.293 1.473 -0.631 H131 YRC 36 YRC H182 H2 H 0 0 N N N N N N -20.742 -15.299 5.415 5.105 -2.417 2.542 H182 YRC 37 YRC H181 H3 H 0 0 N N N N N N -22.152 -14.412 4.745 5.254 -3.310 1.002 H181 YRC 38 YRC H231 H4 H 0 0 N N N N N N -21.698 -15.958 12.195 0.516 4.480 1.746 H231 YRC 39 YRC H241 H5 H 0 0 N N N N N N -22.625 -14.769 14.170 -1.721 4.285 0.744 H241 YRC 40 YRC H262 H6 H 0 0 N N N N N N -25.453 -13.563 15.921 -3.216 -0.452 -1.359 H262 YRC 41 YRC H261 H7 H 0 0 N N N N N N -25.255 -14.329 14.309 -4.734 0.458 -1.645 H261 YRC 42 YRC H011 H8 H 0 0 N N N N N N -23.149 -11.744 16.487 -2.805 4.520 -1.302 H011 YRC 43 YRC H013 H9 H 0 0 N N N N N N -22.927 -13.442 15.944 -4.364 3.663 -1.234 H013 YRC 44 YRC H012 H10 H 0 0 N N N N N N -21.604 -12.247 15.721 -3.459 3.986 0.264 H012 YRC 45 YRC H021 H11 H 0 0 N N N N N N -23.022 -10.980 14.207 -2.551 2.155 -2.003 H021 YRC 46 YRC H121 H12 H 0 0 N N N N N N -19.936 -10.357 8.557 3.954 1.989 -1.170 H121 YRC 47 YRC H201 H13 H 0 0 N N N N N N -22.342 -13.955 8.131 2.701 -1.612 0.798 H201 YRC 48 YRC H221 H14 H 0 0 N N N N N N -21.126 -14.799 10.114 2.243 2.824 1.251 H221 YRC 49 YRC H282 H15 H 0 0 N N N N N N -28.222 -13.902 13.088 -6.825 -0.337 0.562 H282 YRC 50 YRC H281 H16 H 0 0 N N N N N N -27.602 -15.103 14.272 -6.368 -1.147 -0.999 H281 YRC 51 YRC H291 H17 H 0 0 N N N N N N -29.541 -12.820 14.681 -5.932 -2.191 1.891 H291 YRC 52 YRC H301 H18 H 0 0 N N N N N N -29.026 -15.065 16.770 -7.493 -3.380 0.135 H301 YRC 53 YRC H302 H19 H 0 0 N N N N N N -30.317 -13.817 16.820 -6.000 -3.705 -0.777 H302 YRC 54 YRC H322 H20 H 0 0 N N N N N N -27.392 -13.257 16.659 -4.064 -2.531 -0.566 H322 YRC 55 YRC H321 H21 H 0 0 N N N N N N -27.949 -11.750 15.854 -3.590 -2.279 1.171 H321 YRC 56 YRC H051 H22 H 0 0 N N N N N N -22.902 -10.195 12.284 -1.061 0.119 -1.944 H051 YRC 57 YRC H171 H23 H 0 0 N N N N N N -20.155 -14.158 3.174 7.591 -2.645 1.884 H171 YRC 58 YRC H312 H24 H 0 0 N N N N N N -31.197 -15.985 15.950 -6.457 -4.509 2.022 H312 YRC 59 YRC H1 H25 H 0 1 N N N N N N -31.291 -14.859 14.771 -6.550 -5.519 0.704 H1 YRC 60 YRC H2 H27 H 0 1 N N N N N N -22.646 -7.575 10.012 0.674 -2.826 -3.354 H2 YRC 61 # 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 YRC C11 C10 SING N N 1 YRC C11 C12 DOUB Y N 2 YRC C11 C20 SING Y N 3 YRC C13 C12 SING Y N 4 YRC C13 C14 DOUB Y N 5 YRC C15 C14 SING N N 6 YRC C15 N17 SING N N 7 YRC C15 O16 DOUB N N 8 YRC C18 C19 SING N N 9 YRC C18 N17 SING N N 10 YRC C19 C14 SING Y N 11 YRC C19 C20 DOUB Y N 12 YRC C23 C24 DOUB Y N 13 YRC C23 C22 SING Y N 14 YRC C24 C03 SING Y N 15 YRC C26 C27 SING N N 16 YRC C26 N25 SING N N 17 YRC C01 C02 SING N N 18 YRC C02 C03 SING N N 19 YRC C02 N25 SING N N 20 YRC C03 C04 DOUB Y N 21 YRC C04 C21 SING Y N 22 YRC C04 N05 SING Y N 23 YRC C06 C07 SING N N 24 YRC C06 C10 DOUB Y N 25 YRC C06 N05 SING Y N 26 YRC C07 O08 DOUB N N 27 YRC C07 O09 SING N N 28 YRC C10 C21 SING Y N 29 YRC C21 C22 DOUB Y N 30 YRC C27 C28 SING N N 31 YRC C27 C32 SING N N 32 YRC C27 O33 SING N N 33 YRC C28 C29 SING N N 34 YRC C29 C30 SING N N 35 YRC C29 C32 SING N N 36 YRC C30 N31 SING N N 37 YRC C34 N25 SING N N 38 YRC C34 O33 SING N N 39 YRC C34 O35 DOUB N N 40 YRC C13 H131 SING N N 41 YRC C18 H182 SING N N 42 YRC C18 H181 SING N N 43 YRC C23 H231 SING N N 44 YRC C24 H241 SING N N 45 YRC C26 H262 SING N N 46 YRC C26 H261 SING N N 47 YRC C01 H011 SING N N 48 YRC C01 H013 SING N N 49 YRC C01 H012 SING N N 50 YRC C02 H021 SING N N 51 YRC C12 H121 SING N N 52 YRC C20 H201 SING N N 53 YRC C22 H221 SING N N 54 YRC C28 H282 SING N N 55 YRC C28 H281 SING N N 56 YRC C29 H291 SING N N 57 YRC C30 H301 SING N N 58 YRC C30 H302 SING N N 59 YRC C32 H322 SING N N 60 YRC C32 H321 SING N N 61 YRC N05 H051 SING N N 62 YRC N17 H171 SING N N 63 YRC N31 H312 SING N N 64 YRC N31 H1 SING N N 65 YRC O09 H2 SING N N 66 # 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 YRC InChI InChI 1.06 "InChI=1S/C26H26N4O5/c1-13(30-12-26(35-25(30)34)8-14(9-26)10-27)17-3-2-4-19-20(22(24(32)33)29-21(17)19)15-5-6-18-16(7-15)11-28-23(18)31/h2-7,13-14,29H,8-12,27H2,1H3,(H,28,31)(H,32,33)/t13-,14-,26-/m0/s1" YRC InChIKey InChI 1.06 KZULCUQDDHEBJP-SYMLIENRSA-N YRC SMILES_CANONICAL CACTVS 3.385 "C[C@H](N1C[C@]2(C[C@@H](CN)C2)OC1=O)c3cccc4c3[nH]c(C(O)=O)c4c5ccc6C(=O)NCc6c5" YRC SMILES CACTVS 3.385 "C[CH](N1C[C]2(C[CH](CN)C2)OC1=O)c3cccc4c3[nH]c(C(O)=O)c4c5ccc6C(=O)NCc6c5" YRC SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H](c1cccc2c1[nH]c(c2c3ccc4c(c3)CNC4=O)C(=O)O)N5CC6(CC(C6)CN)OC5=O" YRC SMILES "OpenEye OEToolkits" 2.0.7 "CC(c1cccc2c1[nH]c(c2c3ccc4c(c3)CNC4=O)C(=O)O)N5CC6(CC(C6)CN)OC5=O" # _pdbx_chem_comp_identifier.comp_id YRC _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 "7-[(1~{S})-1-[2-(aminomethyl)-6-oxidanylidene-5-oxa-7-azaspiro[3.4]octan-7-yl]ethyl]-3-(1-oxidanylidene-2,3-dihydroisoindol-5-yl)-1~{H}-indole-2-carboxylic acid" # loop_ _pdbx_chem_comp_audit.comp_id _pdbx_chem_comp_audit.action_type _pdbx_chem_comp_audit.date _pdbx_chem_comp_audit.processing_site YRC "Create component" 2023-06-20 PDBE YRC "Initial release" 2024-07-10 RCSB #