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 
# 
