data_YL9 # _chem_comp.id YL9 _chem_comp.name "7-[(1~{S})-1-[5-(2-azanylethyl)-2-oxidanylidene-1,3-oxazolidin-3-yl]ethyl]-3-[3-fluoranyl-4-(methylsulfonylmethyl)phenyl]-1~{H}-indole-2-carboxylic acid" _chem_comp.type non-polymer _chem_comp.pdbx_type HETAIN _chem_comp.formula "C24 H26 F N3 O6 S" _chem_comp.mon_nstd_parent_comp_id ? _chem_comp.pdbx_synonyms ? _chem_comp.pdbx_formal_charge 0 _chem_comp.pdbx_initial_date 2023-06-19 _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 503.543 _chem_comp.one_letter_code ? _chem_comp.three_letter_code YL9 _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 8PG3 _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 YL9 C10 C1 C 0 1 Y N N N N N -21.888 -11.781 9.949 -0.615 0.646 0.478 C10 YL9 1 YL9 C11 C2 C 0 1 Y N N N N N -21.347 -11.899 8.517 -2.049 0.625 0.115 C11 YL9 2 YL9 C12 C3 C 0 1 Y N N N N N -20.442 -10.932 8.067 -3.023 0.796 1.099 C12 YL9 3 YL9 C13 C4 C 0 1 Y N N N N N -19.914 -11.012 6.773 -4.361 0.775 0.753 C13 YL9 4 YL9 N05 N1 N 0 1 Y N N N N N -22.709 -10.857 11.762 1.378 0.101 1.369 N05 YL9 5 YL9 C01 C5 C 0 1 N N N N N N -22.774 -12.509 15.837 5.034 2.787 0.953 C01 YL9 6 YL9 C02 C6 C 0 1 N N S N N N -23.357 -11.993 14.505 4.060 1.609 1.022 C02 YL9 7 YL9 C03 C7 C 0 1 Y N N N N N -22.759 -12.824 13.257 2.744 2.009 0.406 C03 YL9 8 YL9 C04 C8 C 0 1 Y N N N N N -22.514 -12.140 12.048 1.603 1.244 0.639 C04 YL9 9 YL9 C06 C9 C 0 1 Y N N N N N -22.359 -10.620 10.531 0.050 -0.265 1.278 C06 YL9 10 YL9 C07 C10 C 0 1 N N N N N N -22.560 -9.249 9.906 -0.557 -1.431 1.926 C07 YL9 11 YL9 C15 C11 C 0 1 Y N N N N N -20.283 -12.071 5.942 -4.734 0.586 -0.568 C15 YL9 12 YL9 C16 C12 C 0 1 N N N N N N -19.724 -12.222 4.486 -6.195 0.558 -0.939 C16 YL9 13 YL9 C18 C13 C 0 1 N N N N N N -20.935 -9.622 3.788 -8.553 -0.940 -1.307 C18 YL9 14 YL9 C21 C14 C 0 1 Y N N N N N -21.177 -13.033 6.411 -3.772 0.416 -1.547 C21 YL9 15 YL9 C22 C15 C 0 1 Y N N N N N -21.715 -12.960 7.708 -2.433 0.440 -1.214 C22 YL9 16 YL9 C23 C16 C 0 1 Y N N N N N -21.971 -12.775 10.936 0.384 1.635 0.054 C23 YL9 17 YL9 C24 C17 C 0 1 Y N N N N N -21.655 -14.174 11.002 0.329 2.777 -0.748 C24 YL9 18 YL9 C25 C18 C 0 1 Y N N N N N -21.901 -14.872 12.193 1.460 3.512 -0.962 C25 YL9 19 YL9 C26 C19 C 0 1 Y N N N N N -22.456 -14.207 13.317 2.666 3.131 -0.388 C26 YL9 20 YL9 C28 C20 C 0 1 N N N N N N -25.647 -12.992 15.186 4.956 -0.838 0.865 C28 YL9 21 YL9 C29 C21 C 0 1 N N N N N N -26.992 -12.711 14.712 5.496 -1.643 -0.333 C29 YL9 22 YL9 C30 C22 C 0 1 N N N N N N -28.364 -13.319 15.122 6.950 -2.053 -0.091 C30 YL9 23 YL9 C31 C23 C 0 1 N N N N N N -28.312 -14.242 16.368 7.423 -2.954 -1.234 C31 YL9 24 YL9 C34 C24 C 0 1 N N N N N N -25.624 -11.367 13.538 4.903 0.454 -1.023 C34 YL9 25 YL9 F14 F1 F 0 1 N N N N N N -19.034 -10.024 6.393 -5.306 0.940 1.704 F14 YL9 26 YL9 N27 N2 N 0 1 N N N N N N -24.796 -12.125 14.466 4.618 0.472 0.286 N27 YL9 27 YL9 N32 N3 N 0 1 N N N N N N -29.676 -14.522 16.715 8.819 -3.348 -1.003 N32 YL9 28 YL9 O08 O1 O 0 1 N N N N N N -23.001 -9.229 8.718 -1.742 -1.660 1.778 O08 YL9 29 YL9 O09 O2 O 0 1 N N N N N N -22.489 -8.217 10.594 0.199 -2.250 2.686 O09 YL9 30 YL9 O19 O3 O 0 1 N N N N N N -20.552 -11.450 1.866 -6.161 -1.928 -1.817 O19 YL9 31 YL9 O20 O4 O 0 1 N N N N N N -22.319 -11.946 3.415 -6.764 -1.556 0.530 O20 YL9 32 YL9 O33 O5 O 0 1 N N N N N N -27.012 -11.752 13.742 5.406 -0.715 -1.452 O33 YL9 33 YL9 O35 O6 O 0 1 N N N N N N -25.276 -10.555 12.783 4.721 1.406 -1.755 O35 YL9 34 YL9 S17 S1 S 0 1 N N N N N N -20.960 -11.375 3.291 -6.815 -1.143 -0.828 S17 YL9 35 YL9 H121 H1 H 0 0 N N N N N N -20.150 -10.122 8.719 -2.733 0.943 2.129 H121 YL9 36 YL9 H051 H2 H 0 0 N N N N N N -23.071 -10.175 12.398 2.053 -0.378 1.874 H051 YL9 37 YL9 H011 H3 H 0 0 N N N N N N -23.195 -11.929 16.671 5.191 3.069 -0.088 H011 YL9 38 YL9 H012 H4 H 0 0 N N N N N N -23.031 -13.571 15.963 4.619 3.634 1.501 H012 YL9 39 YL9 H013 H5 H 0 0 N N N N N N -21.680 -12.395 15.827 5.986 2.498 1.399 H013 YL9 40 YL9 H021 H6 H 0 0 N N N N N N -23.071 -10.939 14.378 3.903 1.327 2.063 H021 YL9 41 YL9 H162 H7 H 0 0 N N N N N N -19.628 -13.288 4.231 -6.755 1.194 -0.254 H162 YL9 42 YL9 H161 H8 H 0 0 N N N N N N -18.740 -11.737 4.411 -6.318 0.924 -1.958 H161 YL9 43 YL9 H183 H9 H 0 0 N N N N N N -21.234 -9.535 4.843 -9.052 -1.909 -1.281 H183 YL9 44 YL9 H182 H10 H 0 0 N N N N N N -19.919 -9.219 3.661 -9.044 -0.260 -0.611 H182 YL9 45 YL9 H181 H11 H 0 0 N N N N N N -21.636 -9.053 3.160 -8.606 -0.530 -2.315 H181 YL9 46 YL9 H211 H12 H 0 0 N N N N N N -21.462 -13.850 5.765 -4.069 0.269 -2.575 H211 YL9 47 YL9 H221 H13 H 0 0 N N N N N N -22.400 -13.715 8.065 -1.683 0.308 -1.980 H221 YL9 48 YL9 H241 H14 H 0 0 N N N N N N -21.234 -14.681 10.147 -0.606 3.078 -1.197 H241 YL9 49 YL9 H251 H15 H 0 0 N N N N N N -21.666 -15.924 12.255 1.417 4.395 -1.582 H251 YL9 50 YL9 H261 H16 H 0 0 N N N N N N -22.649 -14.759 14.225 3.553 3.722 -0.566 H261 YL9 51 YL9 H281 H17 H 0 0 N N N N N N -25.382 -14.041 14.987 4.067 -1.315 1.278 H281 YL9 52 YL9 H1 H18 H 0 1 N N N N N N -25.572 -12.793 16.265 5.723 -0.731 1.632 H1 YL9 53 YL9 H2 H19 H 0 1 N N N N N N -27.104 -11.935 15.484 4.877 -2.523 -0.512 H2 YL9 54 YL9 H301 H20 H 0 0 N N N N N N -29.056 -12.491 15.336 7.577 -1.162 -0.049 H301 YL9 55 YL9 H302 H21 H 0 0 N N N N N N -28.746 -13.907 14.275 7.024 -2.594 0.852 H302 YL9 56 YL9 H311 H22 H 0 0 N N N N N N -27.780 -15.175 16.130 6.796 -3.845 -1.277 H311 YL9 57 YL9 H312 H23 H 0 0 N N N N N N -27.804 -13.732 17.200 7.349 -2.413 -2.178 H312 YL9 58 YL9 H322 H24 H 0 0 N N N N N N -29.701 -15.118 17.518 9.155 -3.944 -1.744 H322 YL9 59 YL9 H3 H25 H 0 1 N N N N N N -30.150 -13.666 16.921 9.410 -2.537 -0.895 H3 YL9 60 YL9 H4 H27 H 0 1 N N N N N N -22.806 -7.477 10.089 -0.289 -2.991 3.072 H4 YL9 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 YL9 O19 S17 DOUB N N 1 YL9 S17 O20 DOUB N N 2 YL9 S17 C18 SING N N 3 YL9 S17 C16 SING N N 4 YL9 C16 C15 SING N N 5 YL9 C15 C21 DOUB Y N 6 YL9 C15 C13 SING Y N 7 YL9 F14 C13 SING N N 8 YL9 C21 C22 SING Y N 9 YL9 C13 C12 DOUB Y N 10 YL9 C22 C11 DOUB Y N 11 YL9 C12 C11 SING Y N 12 YL9 C11 C10 SING N N 13 YL9 O08 C07 DOUB N N 14 YL9 C07 C06 SING N N 15 YL9 C07 O09 SING N N 16 YL9 C10 C06 DOUB Y N 17 YL9 C10 C23 SING Y N 18 YL9 C06 N05 SING Y N 19 YL9 C23 C24 DOUB Y N 20 YL9 C23 C04 SING Y N 21 YL9 C24 C25 SING Y N 22 YL9 N05 C04 SING Y N 23 YL9 C04 C03 DOUB Y N 24 YL9 C25 C26 DOUB Y N 25 YL9 O35 C34 DOUB N N 26 YL9 C03 C26 SING Y N 27 YL9 C03 C02 SING N N 28 YL9 C34 O33 SING N N 29 YL9 C34 N27 SING N N 30 YL9 O33 C29 SING N N 31 YL9 N27 C02 SING N N 32 YL9 N27 C28 SING N N 33 YL9 C02 C01 SING N N 34 YL9 C29 C30 SING N N 35 YL9 C29 C28 SING N N 36 YL9 C30 C31 SING N N 37 YL9 C31 N32 SING N N 38 YL9 C12 H121 SING N N 39 YL9 N05 H051 SING N N 40 YL9 C01 H011 SING N N 41 YL9 C01 H012 SING N N 42 YL9 C01 H013 SING N N 43 YL9 C02 H021 SING N N 44 YL9 C16 H162 SING N N 45 YL9 C16 H161 SING N N 46 YL9 C18 H183 SING N N 47 YL9 C18 H182 SING N N 48 YL9 C18 H181 SING N N 49 YL9 C21 H211 SING N N 50 YL9 C22 H221 SING N N 51 YL9 C24 H241 SING N N 52 YL9 C25 H251 SING N N 53 YL9 C26 H261 SING N N 54 YL9 C28 H281 SING N N 55 YL9 C28 H1 SING N N 56 YL9 C29 H2 SING N N 57 YL9 C30 H301 SING N N 58 YL9 C30 H302 SING N N 59 YL9 C31 H311 SING N N 60 YL9 C31 H312 SING N N 61 YL9 N32 H322 SING N N 62 YL9 N32 H3 SING N N 63 YL9 O09 H4 SING N N 64 # 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 YL9 InChI InChI 1.06 "InChI=1S/C24H26FN3O6S/c1-13(28-11-16(8-9-26)34-24(28)31)17-4-3-5-18-20(22(23(29)30)27-21(17)18)14-6-7-15(19(25)10-14)12-35(2,32)33/h3-7,10,13,16,27H,8-9,11-12,26H2,1-2H3,(H,29,30)/t13-,16?/m0/s1" YL9 InChIKey InChI 1.06 UIIWUALQRYLZNH-KNVGNIICSA-N YL9 SMILES_CANONICAL CACTVS 3.385 "C[C@H](N1C[C@H](CCN)OC1=O)c2cccc3c2[nH]c(C(O)=O)c3c4ccc(C[S](C)(=O)=O)c(F)c4" YL9 SMILES CACTVS 3.385 "C[CH](N1C[CH](CCN)OC1=O)c2cccc3c2[nH]c(C(O)=O)c3c4ccc(C[S](C)(=O)=O)c(F)c4" YL9 SMILES_CANONICAL "OpenEye OEToolkits" 2.0.7 "C[C@@H](c1cccc2c1[nH]c(c2c3ccc(c(c3)F)CS(=O)(=O)C)C(=O)O)N4CC(OC4=O)CCN" YL9 SMILES "OpenEye OEToolkits" 2.0.7 "CC(c1cccc2c1[nH]c(c2c3ccc(c(c3)F)CS(=O)(=O)C)C(=O)O)N4CC(OC4=O)CCN" # _pdbx_chem_comp_identifier.comp_id YL9 _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-[5-(2-azanylethyl)-2-oxidanylidene-1,3-oxazolidin-3-yl]ethyl]-3-[3-fluoranyl-4-(methylsulfonylmethyl)phenyl]-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 YL9 "Create component" 2023-06-20 PDBE YL9 "Initial release" 2024-07-10 RCSB #